39d9ccf3c34cbdd2dde7a83d61cf21c6 *DESCRIPTION
aa208fed8e16ce9ba0dfe2c621c9b9a3 *NAMESPACE
df16162cb9dbe0a7e81a4612c406b675 *NEWS.md
8767f53905d6436b2806189564de5147 *R/bootstrap.R
22eb2f81a1278f234c3ae7d6957b9b35 *R/build.R
00c3ee6768d945c3f5b9e729d431ca2f *R/catalog.R
8ace393e1df82dc43c67abbf5839de2b *R/connection.R
dc7ddeebd132f53163393d41347624ce *R/convert_parquet.R
08fae8772ca94ba790e06fa5161b72d7 *R/duckhts.R
b619786164e62a70513ab3ee1bdf8814 *R/extension_metadata.R
66986db4e6717a9afacce8216ccb440d *R/geno.R
99a552bb0a2814fe7d33da4e3f7bdf1e *R/haplotypes.R
c3b628634cc12b3efc20704b3cc507cc *R/htslib.R
fca5f277a50655e64d4ff2f82400b292 *R/load_compat.R
16ab8bf22cfa7a633f46939d6a9a1ad3 *R/package.R
975a4134f366909c9766740bd4b55556 *R/package_paths.R
bb22326110844ce3a26553779a14bfb1 *R/simd.R
30c50f1ea985e430961c105d2fa93b29 *R/somalier.R
ac2e0d0f808ebb8669e2a3357a752871 *R/source_manifest.R
cd5d0c2b84b69594ca454722d74cca46 *R/sql_helpers.R
f4b076abbb73875f9d8f57007d971aa2 *R/type_helpers.R
bf4b0bb41c925b8aefd23c990af6d1b5 *cleanup
d15601d57efdd3739d4e978bd2fa09c4 *cleanup.win
4627ff2ca26609f24dfb4227034c540c *configure
48a6abec7a397a9a0fcdec24b2ca678d *configure.win
6997c9189d283630b58e07ad0368271e *inst/COPYRIGHT
448ff943ea386284ceb34448393b724b *inst/WORDLIST
9efe72320a12b9ab8460dcfd0c826037 *inst/duckhts_extension/bam_bed_coverage.c
1709f8d4b3305b4cb20a562657dbdcfe *inst/duckhts_extension/bam_bin_counts.c
9c7b9170c984a9754dccd230b68db820 *inst/duckhts_extension/bam_pileup.c
e8d8b5b723a6a7ee53c9a55d603e24dd *inst/duckhts_extension/bam_reader.c
f05cc32e65b6e1e23c76c21ef46542bb *inst/duckhts_extension/bam_site_counts.c
1c3ab7a87b83ccda524e20d9c1dbbaae *inst/duckhts_extension/bcf_field_vector.c
d5b2d270d2b7ba58aa313fa8191be27a *inst/duckhts_extension/bcf_filter_vector.c
9b41bb38f663d2e8dc3f1b2f75f78500 *inst/duckhts_extension/bcf_format.c
635af962dd08b779b55a9aad7dae68a1 *inst/duckhts_extension/bcf_genotypes.c
e92307239f81626008d1526361ef2934 *inst/duckhts_extension/bcf_reader.c
7b1a0b2b4e191fe0a77444336b7b23b6 *inst/duckhts_extension/bcf_scan.c
e675f984424844c5c4d34e3e7627149f *inst/duckhts_extension/bcftools_filter.c
12db250ec3729e04aac988a86b8fdf18 *inst/duckhts_extension/bcftools_norm_udf.c
35faf27ce7d75c456293148cebbf1e4f *inst/duckhts_extension/bgzip.c
1603fc2f4edf835350d07378b5df2d6e *inst/duckhts_extension/bigwig_reader.c
f039c50595fb6d425fef60473010fd6c *inst/duckhts_extension/cgranges.c
b43d570f659103ee062a12f7f81d67b4 *inst/duckhts_extension/cgranges_api.c
027593fdc62c40ebd2b6a09b1155d806 *inst/duckhts_extension/duckdb_capi/duckdb.h
0bfe567da51753fcf4ebb36f7dd781af *inst/duckhts_extension/duckdb_capi/duckdb_extension.h
7f62452d5904ba9bab24bf082005231e *inst/duckhts_extension/duckhts.c
a4456f7437ade339ef5ba4fce770de03 *inst/duckhts_extension/duckhts_sources.tsv
3570df02fd84f0fba8f33cfa973f02bd *inst/duckhts_extension/duckvep/duckvep_annotate.c
4ddbe9ab5d22eed42ccf500680fc6d0a *inst/duckhts_extension/duckvep/duckvep_ensembl.c
4da057aaf5d8a631df30f006974799dc *inst/duckhts_extension/duckvep/duckvep_haplotype_sql.c
99817a4cc3548bb98752b35b0bc3da83 *inst/duckhts_extension/duckvep/duckvep_model.c
f7c162a3e6ef6190b9170f151e41e7cc *inst/duckhts_extension/duckvep/duckvep_model.h
66017ce9da137b04c6b08a5f466595d8 *inst/duckhts_extension/duckvep/duckvep_phase_sql.c
9eaf2a3e1b8796ac79bfc53686e98d09 *inst/duckhts_extension/duckvep/duckvep_reference.c
a545c74add3fcc294fda57be4afb4082 *inst/duckhts_extension/duckvep/duckvep_reference.h
5ca2d0a1ca506d5dd822cbd5042967b7 *inst/duckhts_extension/duckvep/duckvep_sql.c
0cef80c1c56315e92dbbd7c904a4cbe5 *inst/duckhts_extension/duckvep/kernel/include/duckvep_kernel.h
3cf8e7edde995f2f1ddf9e2340d53c5c *inst/duckhts_extension/duckvep/kernel/include/duckvep_so.h
90c59c5a78c6a456ac623a1bd90c8895 *inst/duckhts_extension/duckvep/kernel/src/duckvep_annotation_internal.h
bd364effb4d9a689f48352dae86f01c6 *inst/duckhts_extension/duckvep/kernel/src/duckvep_carriers.c
4cc55f773b6c921a4c2d8a3caf0fe5a0 *inst/duckhts_extension/duckvep/kernel/src/duckvep_carriers.h
d4bc62db6f69f3c18ce89ed5b78f02b6 *inst/duckhts_extension/duckvep/kernel/src/duckvep_classify.c
9713ec234434e80d55e59daf0c323694 *inst/duckhts_extension/duckvep/kernel/src/duckvep_classify.h
a6017070885bedadafd74cfa82be5f38 *inst/duckhts_extension/duckvep/kernel/src/duckvep_coding.c
936ba0c5be2faa34099e7d314eb9c661 *inst/duckhts_extension/duckvep/kernel/src/duckvep_coding.h
f732872372bd79ad3b183d95ccd78347 *inst/duckhts_extension/duckvep/kernel/src/duckvep_codon.c
6a081ab0bc4e19f935db4da8731b661e *inst/duckhts_extension/duckvep/kernel/src/duckvep_codon.h
b233a3fa04c55f754ead6570ad6665bf *inst/duckhts_extension/duckvep/kernel/src/duckvep_compat.h
96ad62fe857ff5a15e5f91ecca71ebc2 *inst/duckhts_extension/duckvep/kernel/src/duckvep_delta.c
4c64c8a5a8b20dfd9c25ba6e53d27de2 *inst/duckhts_extension/duckvep/kernel/src/duckvep_delta.h
cad05126f49d39d2bb378e98c997bd38 *inst/duckhts_extension/duckvep/kernel/src/duckvep_dna.h
415a4bc976e51f62a41fa893dd6661bb *inst/duckhts_extension/duckvep/kernel/src/duckvep_effect.c
6332fbad61fc65f08ce94fdcfd404d78 *inst/duckhts_extension/duckvep/kernel/src/duckvep_effect.h
8ef08261aac5b9674ffa6f297ed00a06 *inst/duckhts_extension/duckvep/kernel/src/duckvep_effect_rules.inc
c1fa8d467bddf0443038da2a1af35b68 *inst/duckhts_extension/duckvep/kernel/src/duckvep_event.h
6ab7a3d9edbc4a37515ec6dca2cd44f4 *inst/duckhts_extension/duckvep/kernel/src/duckvep_haplotype.c
afd20d217cd42c3855e540d73889f987 *inst/duckhts_extension/duckvep/kernel/src/duckvep_haplotype.h
cbbb85edb3a336843f8f0ad7d90e17f7 *inst/duckhts_extension/duckvep/kernel/src/duckvep_haplotype_stream.c
5598684e4b6726cf1087299599d1b5d8 *inst/duckhts_extension/duckvep/kernel/src/duckvep_haplotype_stream.h
c5efde545285eced73cf9a93f2d0fce5 *inst/duckhts_extension/duckvep/kernel/src/duckvep_hgvs.c
3b8dfb381e55d2264c125778e6da37d8 *inst/duckhts_extension/duckvep/kernel/src/duckvep_hgvs.h
31b0e9a2a4d93e6f57481e65e3976d21 *inst/duckhts_extension/duckvep/kernel/src/duckvep_kernel.c
d254bcd640e03692d99892a20c1a04e1 *inst/duckhts_extension/duckvep/kernel/src/duckvep_model_internal.h
d4c534341d1b247d38f504e3b5f0592a *inst/duckhts_extension/duckvep/kernel/src/duckvep_phase.c
167cab37e38eecddcc9c70117465e4f2 *inst/duckhts_extension/duckvep/kernel/src/duckvep_phase.h
cfea1e1cdfd4d824c2e943827505236b *inst/duckhts_extension/duckvep/kernel/src/duckvep_projection.c
81ee9374e9a6e95b8de34ed89f115f32 *inst/duckhts_extension/duckvep/kernel/src/duckvep_projection.h
b146b1a32aee8a0251def836359859dd *inst/duckhts_extension/duckvep/kernel/src/duckvep_sequence_diff.c
02497805773112f3e2cf1d7dcc7f2dae *inst/duckhts_extension/duckvep/kernel/src/duckvep_sequence_diff.h
3a0791b58bf3a155abd6eedc6dcca817 *inst/duckhts_extension/duckvep/kernel/src/duckvep_so.c
6ac13263fde4daf8ff71f6454b466a86 *inst/duckhts_extension/duckvep/kernel/src/duckvep_so_metadata.inc
4e3a617a1deca9c747886cee7a7a52b7 *inst/duckhts_extension/duckvep/kernel/src/duckvep_sv.c
24185664ca2b0fbabfdbd1db48d2168b *inst/duckhts_extension/duckvep/kernel/src/duckvep_sv.h
1d80db6b191611aed1a1e23e58089723 *inst/duckhts_extension/duckvep/kernel/src/duckvep_sweep.c
03b05073b99c25378d9ca0d67a22fc63 *inst/duckhts_extension/duckvep/kernel/src/duckvep_sweep.h
db4a770be37176699c6f4fc2a089254c *inst/duckhts_extension/duckvep/kernel/src/duckvep_transcript_edit.c
953f7505e1189fa893682ae98491030d *inst/duckhts_extension/duckvep/kernel/src/duckvep_transcript_edit.h
227e85e65aa35cdbd3766ebad5dc3e45 *inst/duckhts_extension/duckvep/kernel/src/duckvep_workspace_internal.h
041810f556f88ba253ad0ccbe7131c64 *inst/duckhts_extension/fastq_qc.c
d86520bec232029722d15bf6cc317742 *inst/duckhts_extension/geno_reader.c
c1577bce6201b029a85984a0e8540426 *inst/duckhts_extension/hts_index_builder.c
af9fe70c4bbc66531c0fb7bc54bbff50 *inst/duckhts_extension/hts_meta_reader.c
df8355cbd2744782bd6adf1cbfcc683a *inst/duckhts_extension/htslib/INSTALL
5db339733bb3fa84f76d508a0150c866 *inst/duckhts_extension/htslib/LICENSE
3545eba3cf81a8af7f7cf01913d51580 *inst/duckhts_extension/htslib/Makefile
f940357f4ab00503a781e060b7be1ffe *inst/duckhts_extension/htslib/NEWS
67a6a8c3e155b389bbe5ea3eb83f3cd5 *inst/duckhts_extension/htslib/README
06d0e1095be158487d8342ec8ad4c718 *inst/duckhts_extension/htslib/README.large_positions.md
ccd5325bd0291a58003a4599b80ebf5e *inst/duckhts_extension/htslib/VERSION
5acadc7e54a713de5ea33d0a7c028fed *inst/duckhts_extension/htslib/annot-tsv.1
2f084e4f069912c663ed08b533e7e7fe *inst/duckhts_extension/htslib/annot-tsv.c
e62f6271cabf5c5e3e509b541220fd0f *inst/duckhts_extension/htslib/bcf_sr_sort.c
8984e5ea0386a0492e65770c85fddf5b *inst/duckhts_extension/htslib/bcf_sr_sort.h
72d071563d3fda58ca2df10801e69f63 *inst/duckhts_extension/htslib/bgzf.c
604fc55e1dbc7bf12132d18e0397cfd0 *inst/duckhts_extension/htslib/bgzf_internal.h
435cd0569f16b3a251c9ca267ed4602b *inst/duckhts_extension/htslib/bgzip.1
e0ea1084ed112e76da3100faad4fec73 *inst/duckhts_extension/htslib/bgzip.c
b5796965b73ef54e3a54fa2024dc5360 *inst/duckhts_extension/htslib/builddir_vars.mk.in
6dec0cbd49949c70115c12478f0b3a5c *inst/duckhts_extension/htslib/config.guess
736521297f0674c7637bec491ab349e9 *inst/duckhts_extension/htslib/config.h.in
e96550a0a389b16253da4fce57dced1a *inst/duckhts_extension/htslib/config.mk.in
a0d01e206e6d8c703a1ea03c0ac70dcc *inst/duckhts_extension/htslib/config.sub
3324854ad60bf88ee014a58e58e5470d *inst/duckhts_extension/htslib/configure
1d6cfcd2e0a0b6441ed0cc8634338ed0 *inst/duckhts_extension/htslib/configure.ac
cb5a8b21e8f800c37f1bcb74e96dede6 *inst/duckhts_extension/htslib/cram/README
99062f826a4f0b604dc811c7d2c745fa *inst/duckhts_extension/htslib/cram/cram.h
4747b76bda4f5fe93b7b6b9e31c01140 *inst/duckhts_extension/htslib/cram/cram_codecs.c
99f9ea3944f9bd05a1716e95b6b8fc62 *inst/duckhts_extension/htslib/cram/cram_codecs.h
49700908b943d7074fc9ab036b48970c *inst/duckhts_extension/htslib/cram/cram_decode.c
94533d42a6090c75cac4e2be5a803c3a *inst/duckhts_extension/htslib/cram/cram_decode.h
2ea1bd8eb7df823b8a0bb72bbe70066e *inst/duckhts_extension/htslib/cram/cram_encode.c
8bdf95f27c4cedee5ce52a887fd67ce3 *inst/duckhts_extension/htslib/cram/cram_encode.h
43f5847bd0a37662fea56e9800a37c17 *inst/duckhts_extension/htslib/cram/cram_external.c
8ee1863be347009e7990332649186065 *inst/duckhts_extension/htslib/cram/cram_index.c
17e538b85cf182f911eb6f3caef6794d *inst/duckhts_extension/htslib/cram/cram_index.h
125c20058a8a2f1c4a50d3624d1b242c *inst/duckhts_extension/htslib/cram/cram_io.c
41076460cd20be69beaa057ffb1e3810 *inst/duckhts_extension/htslib/cram/cram_io.h
0b2b7c32ca7040f0b104def891c17426 *inst/duckhts_extension/htslib/cram/cram_samtools.h
b9c1e9529a66789e2612fb2b731d49f6 *inst/duckhts_extension/htslib/cram/cram_stats.c
951aef7d50ef880fe4ac2e1076b8df07 *inst/duckhts_extension/htslib/cram/cram_stats.h
0bc1fda6913190d9838a60d1a653a999 *inst/duckhts_extension/htslib/cram/cram_structs.h
6eaf828206e64502054491af755ca346 *inst/duckhts_extension/htslib/cram/mFILE.c
e35f1f89f2ede5c5d475ac29a2d41c96 *inst/duckhts_extension/htslib/cram/mFILE.h
58b320fb959437220f9a9f62f0ef0bb9 *inst/duckhts_extension/htslib/cram/misc.h
fac31d90b24a2d14f6740b0e84fb519c *inst/duckhts_extension/htslib/cram/open_trace_file.c
5595dfafbeb8dd60580b37b615e4ad00 *inst/duckhts_extension/htslib/cram/open_trace_file.h
022071c2a8620a6d4b7535aba9d5ec60 *inst/duckhts_extension/htslib/cram/os.h
27e5677b3773d126287069b5ae4de902 *inst/duckhts_extension/htslib/cram/pooled_alloc.c
7a4726e77f89e6c1276c02d28699b490 *inst/duckhts_extension/htslib/cram/pooled_alloc.h
269f9909b8aa3ae0b7c823a6205babef *inst/duckhts_extension/htslib/cram/string_alloc.c
6a1efd8ad6b21b9ff0fb7eccc074982c *inst/duckhts_extension/htslib/cram/string_alloc.h
4b8b0de755f832e704d02e0579a458a6 *inst/duckhts_extension/htslib/errmod.c
f3d9ad16d8ef733899632bb02c0045b2 *inst/duckhts_extension/htslib/faidx.5
ca5ebee050951a7e29bbbd713db58b2a *inst/duckhts_extension/htslib/faidx.c
a006ef331e197adc0d8da63ee1286c10 *inst/duckhts_extension/htslib/fuzz_settings.h
fbb89d21e459cb4865adc34d4fa3a16d *inst/duckhts_extension/htslib/header.c
8cbce47acd60fea0425af35aeefe147f *inst/duckhts_extension/htslib/header.h
9d8ef1f20853bae317834a8b857fc658 *inst/duckhts_extension/htslib/hfile.c
07c2a1401ce59841450a222f508ce783 *inst/duckhts_extension/htslib/hfile_gcs.c
fa2dbfe8b01074920a007e742e16ffe6 *inst/duckhts_extension/htslib/hfile_internal.h
8880d1fb87cd6e32c87cb8f0ab5b066a *inst/duckhts_extension/htslib/hfile_libcurl.c
6d57c930a6e9143d93087275dd8816a5 *inst/duckhts_extension/htslib/hfile_s3.c
2776a793b2bab855a8ef3534e002979b *inst/duckhts_extension/htslib/hts.c
883ef94a4e8fcd3d844155cfc8f899ef *inst/duckhts_extension/htslib/hts_expr.c
0dc6785ff428b3c67906f50635ee84a3 *inst/duckhts_extension/htslib/hts_internal.h
271cdc2f751552ad5f4e0907a911889d *inst/duckhts_extension/htslib/hts_os.c
9f67b3b27b0d330d72616e376de69258 *inst/duckhts_extension/htslib/hts_probe_cc.sh
3bd0b8499f1d69ed4b6161b4702cf9ec *inst/duckhts_extension/htslib/hts_time_funcs.h
5715f77f3ea99872c9eb5c278fd87af1 *inst/duckhts_extension/htslib/htscodecs.mk
3e1094f4541b0a6f7cb8ba04a61c1768 *inst/duckhts_extension/htslib/htscodecs/BENCHMARKS.md
96776788ab6bf55c91df60a61da4d395 *inst/duckhts_extension/htslib/htscodecs/LICENSE.md
bcfb92bc838d0e099637f56ab3157530 *inst/duckhts_extension/htslib/htscodecs/MAINTAINERS.md
472dfc8058ff53888333e084a1a0e617 *inst/duckhts_extension/htslib/htscodecs/NEWS.md
56f7015abac65e515c0de319e6b9f95f *inst/duckhts_extension/htslib/htscodecs/htscodecs/arith_dynamic.c
3bebbf96ee7499fb67bd7e22dc2c02c7 *inst/duckhts_extension/htslib/htscodecs/htscodecs/arith_dynamic.h
64ddd57f0713ced05b1a85fed4a12da2 *inst/duckhts_extension/htslib/htscodecs/htscodecs/c_range_coder.h
8bd2345f88a7ef5bf3a250e44bd9f2a0 *inst/duckhts_extension/htslib/htscodecs/htscodecs/c_simple_model.h
d7cd6b82eb88d4a0a88ee221028c0339 *inst/duckhts_extension/htslib/htscodecs/htscodecs/fqzcomp_qual.c
a3e5911f443512aa790ae9266204f681 *inst/duckhts_extension/htslib/htscodecs/htscodecs/fqzcomp_qual.h
fcea74424bc7272d70c432e54b9a16c8 *inst/duckhts_extension/htslib/htscodecs/htscodecs/htscodecs.c
a0c2bf3063940205562cf5dd77b71f86 *inst/duckhts_extension/htslib/htscodecs/htscodecs/htscodecs.h
b9acef1cd0aca8e5fa59f4d3da84c1c1 *inst/duckhts_extension/htslib/htscodecs/htscodecs/htscodecs_endian.h
918984f559ed4f4f47f9075de0dbf7de *inst/duckhts_extension/htslib/htscodecs/htscodecs/pack.c
f1ddaa4fec3541715aec5bc614f6b3e8 *inst/duckhts_extension/htslib/htscodecs/htscodecs/pack.h
df68c8c98266e391c4cb9496e2909a1f *inst/duckhts_extension/htslib/htscodecs/htscodecs/permute.h
381f84fc859100ca0cbcca474c06bd52 *inst/duckhts_extension/htslib/htscodecs/htscodecs/pooled_alloc.h
22c4fc39a735fc08dccf570d2f736ae3 *inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_byte.h
a47fa0cab341066c5fbbf6f299218755 *inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static.c
4c6a3a1d2751bbc87fccc46cc4352807 *inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static.h
71ab8a3552e4991f42b815cdf1099d30 *inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static16_int.h
1e977efeee37286d22301349e6eba230 *inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static32x16pr.c
2ce42bd09401164653de93cffafe2fd5 *inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static32x16pr.h
656c6ecd6d09cf15a0178bc70db2be17 *inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static32x16pr_avx2.c
d68bda093b2f9987a085dcc55583c2ec *inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static32x16pr_avx512.c
792a038b99c27d10d6533a56e632ed0a *inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static32x16pr_neon.c
11c00a7c1d1bcc3affad15fccc702031 *inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static32x16pr_sse4.c
66c332e6abcbc2573bb542b5a2f6983a *inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static4x16.h
331dc19e0988d9f2087fa5562187aa53 *inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_static4x16pr.c
35ad5bde92f5fd7d630bc9068278c0cf *inst/duckhts_extension/htslib/htscodecs/htscodecs/rANS_word.h
57a8933f56b7163a135db846eee9e46c *inst/duckhts_extension/htslib/htscodecs/htscodecs/rle.c
096cae17d6ff1a8e9d45cf1f1b60d114 *inst/duckhts_extension/htslib/htscodecs/htscodecs/rle.h
32bfd7bdee0c447b1680d299a242db88 *inst/duckhts_extension/htslib/htscodecs/htscodecs/tokenise_name3.c
44c9835f7d7c96365e360b77e709ab3d *inst/duckhts_extension/htslib/htscodecs/htscodecs/tokenise_name3.h
754fa087faf7ccd9d7fddc8aa508e37e *inst/duckhts_extension/htslib/htscodecs/htscodecs/utils.c
6f2178782bbf944e03b7000579938877 *inst/duckhts_extension/htslib/htscodecs/htscodecs/utils.h
bc72d86f82839e0312444230129f3f5b *inst/duckhts_extension/htslib/htscodecs/htscodecs/varint.h
77b55b6b73fb30ed3524d9ab81933069 *inst/duckhts_extension/htslib/htscodecs/htscodecs/varint2.h
e4c913c56beb3114576a4da3deb78b7a *inst/duckhts_extension/htslib/htscodecs/htscodecs/version.h
4e498f70508061aa354616bce668ea9c *inst/duckhts_extension/htslib/htscodecs_bundled.mk
d42edb02d492dbfd97b73d1c2d38ddc9 *inst/duckhts_extension/htslib/htscodecs_external.mk
2daa6b66c93ff37ff04b22dc50b4d043 *inst/duckhts_extension/htslib/htsfile.1
63e653f6e7db1796fe734ab6f1329dfb *inst/duckhts_extension/htslib/htsfile.c
9106895714c342f8112a493337accebb *inst/duckhts_extension/htslib/htslib-s3-plugin.7
adb4eb775ba05ff46a30bea36c62f660 *inst/duckhts_extension/htslib/htslib.map
375161f73d078c1ab6f839f75e7daafb *inst/duckhts_extension/htslib/htslib.mk
6258aeb1565a8e1afaa335072300d4ba *inst/duckhts_extension/htslib/htslib.pc.in
ca5f302f7827b0a687e76f0bebc7b011 *inst/duckhts_extension/htslib/htslib/bgzf.h
171fc706b3a744b5e8c7d2d66b576fd5 *inst/duckhts_extension/htslib/htslib/cram.h
fbedb841d7502e4374e1d7543bcf85db *inst/duckhts_extension/htslib/htslib/faidx.h
3b435180c777db0ac7bc21d9eb81c7b8 *inst/duckhts_extension/htslib/htslib/hfile.h
9ed7f3508a2667d2b84642603087050d *inst/duckhts_extension/htslib/htslib/hts.h
17a14b5bfc45c5a965818935fae67d1f *inst/duckhts_extension/htslib/htslib/hts_alloc.h
c9ba48b7c73bec4830f031c9f1ad636b *inst/duckhts_extension/htslib/htslib/hts_defs.h
3ace348d7e7ce5e203f3efd35285d3ee *inst/duckhts_extension/htslib/htslib/hts_endian.h
8a5f58a70ed340e3825294e799b841b6 *inst/duckhts_extension/htslib/htslib/hts_expr.h
8fb2df4647dee4d3e4fb3802c924da5f *inst/duckhts_extension/htslib/htslib/hts_log.h
3d406f82e08b95aa9a210b336f87cb7f *inst/duckhts_extension/htslib/htslib/hts_os.h
af68e3dc848bbffd03e52a02b555a3a7 *inst/duckhts_extension/htslib/htslib/kbitset.h
905afa0bbfc0cae217b909aef543fa93 *inst/duckhts_extension/htslib/htslib/kfunc.h
be16e253e6c61dc112a833dc91c207f9 *inst/duckhts_extension/htslib/htslib/khash.h
163c505b6a47b236c04f9455ee4c493c *inst/duckhts_extension/htslib/htslib/khash_str2int.h
87c61d34e518ef252cb6e61da8a7ce05 *inst/duckhts_extension/htslib/htslib/klist.h
12a9d6f435e206d56eaec88ed5215b96 *inst/duckhts_extension/htslib/htslib/knetfile.h
06b42704ca4b4b17f448ef9d364b8783 *inst/duckhts_extension/htslib/htslib/kroundup.h
a138d9939ae49621509becabe3f58795 *inst/duckhts_extension/htslib/htslib/kseq.h
5c4039ea8355fc7974513e50a2937f1e *inst/duckhts_extension/htslib/htslib/ksort.h
a725a582cfdbde88aaa6b59a9e722c9b *inst/duckhts_extension/htslib/htslib/kstring.h
a8d476786a1351aec6445026da0d1ac2 *inst/duckhts_extension/htslib/htslib/regidx.h
70a4087b3d17f94e15b8bce09561891b *inst/duckhts_extension/htslib/htslib/sam.h
d56e286447e054353132b9ff1799dce4 *inst/duckhts_extension/htslib/htslib/synced_bcf_reader.h
b9de27a055e70160e5e9fd7b70248a9d *inst/duckhts_extension/htslib/htslib/tbx.h
5d883251fe956346afb5db145274af76 *inst/duckhts_extension/htslib/htslib/thread_pool.h
5df07fc4135e6cc47b6b57ef6e12538b *inst/duckhts_extension/htslib/htslib/vcf.h
70eb4c499026fce028f561e6626fff0a *inst/duckhts_extension/htslib/htslib/vcf_sweep.h
8c149b90a7de95f0f7fbca92ca9ec218 *inst/duckhts_extension/htslib/htslib/vcfutils.h
e0a2d9a8d36e490ec6df09f7befb206e *inst/duckhts_extension/htslib/htslib_vars.mk
fb8f3dc0967408ebc323222c2d8c5751 *inst/duckhts_extension/htslib/kfunc.c
e08ae24fa41113bf7eca054f5f7426ae *inst/duckhts_extension/htslib/kstring.c
248d825062a5ffd203201b7f47992dca *inst/duckhts_extension/htslib/m4/hts_check_compile_flags_needed.m4
5691e586e41ecb9442135ba7792dc8c9 *inst/duckhts_extension/htslib/m4/hts_hide_dynamic_syms.m4
676d3a12270f153f21ba53b62b36b2c0 *inst/duckhts_extension/htslib/m4/hts_prog_cc_warnings.m4
6456606f1e39c386878530c9c2853890 *inst/duckhts_extension/htslib/m4/pkg.m4
e8b45a3fbd028f136c504246f06d2700 *inst/duckhts_extension/htslib/md5.c
b6e15b1299ae473244c9bbd945558aa5 *inst/duckhts_extension/htslib/multipart.c
77adf0784cbf8d94d0c6dc39f043cd5a *inst/duckhts_extension/htslib/os/lzma_stub.h
711e7febb647564aec435289d0ddc52e *inst/duckhts_extension/htslib/os/rand.c
3f9a3f745564218937f519cd32b294a2 *inst/duckhts_extension/htslib/plugin.c
6644d2132fce8bfd483ccd419465c20b *inst/duckhts_extension/htslib/probaln.c
32eb030c4bceb2760d3c585255d27d6a *inst/duckhts_extension/htslib/realn.c
26d841c96c8a7ec3d4fcff07d69956bd *inst/duckhts_extension/htslib/ref_cache/cmsg_wrap.c
eb8aeb199544298512094af9eed2c8b6 *inst/duckhts_extension/htslib/ref_cache/cmsg_wrap.h
11bf41bf58fd30d886421478234167dd *inst/duckhts_extension/htslib/ref_cache/http_parser.c
40e00615a911464f69af55eedb67a875 *inst/duckhts_extension/htslib/ref_cache/http_parser.h
007db16179bd0df5bd26a72639b378e7 *inst/duckhts_extension/htslib/ref_cache/listener.c
cda0255f64282c0c715a2fbc3264daad *inst/duckhts_extension/htslib/ref_cache/listener.h
ad76ad3d15bae76955684b912ef3279e *inst/duckhts_extension/htslib/ref_cache/log_files.c
be56e5811f893ccb08a3ca4cdc07a0a3 *inst/duckhts_extension/htslib/ref_cache/log_files.h
291b9a64f8c82452559902c08e7a6557 *inst/duckhts_extension/htslib/ref_cache/main.c
3a4990a4abcf17b5cdb885d3481dd246 *inst/duckhts_extension/htslib/ref_cache/misc.c
57437cceaab6883b18284c6490bdbed0 *inst/duckhts_extension/htslib/ref_cache/misc.h
d2308d80e2b5450b55db5f98c4e21985 *inst/duckhts_extension/htslib/ref_cache/options.h
d798c6d993bb2b5728ae0323262296d9 *inst/duckhts_extension/htslib/ref_cache/ping.c
cf6f416dfe81c64aaf3036c9c9452ffe *inst/duckhts_extension/htslib/ref_cache/ping.h
f02cbe6ba6359a3b827382a138ef8b57 *inst/duckhts_extension/htslib/ref_cache/poll_wrap.h
dc6bf8b68cea9a9f4405acb73beef691 *inst/duckhts_extension/htslib/ref_cache/poll_wrap_epoll.c
bad1ddc09e87b4db29970d411cc36887 *inst/duckhts_extension/htslib/ref_cache/poll_wrap_poll.c
54aa86f175b0cb03ec515b74b001b687 *inst/duckhts_extension/htslib/ref_cache/ref-cache.1
440b8888b79b01e8f1418e5925fceb51 *inst/duckhts_extension/htslib/ref_cache/ref_files.c
0a262b1780c231077338cc75241eac95 *inst/duckhts_extension/htslib/ref_cache/ref_files.h
71b7e48afb044d697e2a6dff7a648230 *inst/duckhts_extension/htslib/ref_cache/request_handler.c
f75e7ec3328d96201a5db10ddd2b9f1d *inst/duckhts_extension/htslib/ref_cache/request_handler.h
c9b4aad6fa6c1a04f34af8b3bac66f92 *inst/duckhts_extension/htslib/ref_cache/sendfile_wrap.c
5af86178ff5c922c60f02d26dfd3cb63 *inst/duckhts_extension/htslib/ref_cache/sendfile_wrap.h
e4a30c918763aa45873bfb193cad3efc *inst/duckhts_extension/htslib/ref_cache/server.c
21a2b717b9d79de753463b204b718ba6 *inst/duckhts_extension/htslib/ref_cache/server.h
3eeb4c117e03abec493e4f8db46ebb1f *inst/duckhts_extension/htslib/ref_cache/transaction.c
cd06ecd9a4c0ce95393ad65ff97c7aa2 *inst/duckhts_extension/htslib/ref_cache/transaction.h
8460d60d577efa0a58408806d6efee48 *inst/duckhts_extension/htslib/ref_cache/types.h
70561e4d2b417c0e6a94231b1ce89c1a *inst/duckhts_extension/htslib/ref_cache/upstream.c
a9e2630f65d32b425384e0bae70b28dd *inst/duckhts_extension/htslib/ref_cache/upstream.h
3eb9ea66984c3617cd77607ae567ca95 *inst/duckhts_extension/htslib/regidx.c
92a627b830a84b4698bbafaaae00fc1a *inst/duckhts_extension/htslib/region.c
dbbb70ea8ac7661080c2d1c835e8d8fb *inst/duckhts_extension/htslib/sam.5
9d2d0f9e7c27d07d95061033867d37ae *inst/duckhts_extension/htslib/sam.c
fa809e2127b25e74ebf95e46b7ab3e73 *inst/duckhts_extension/htslib/sam_internal.h
e713ebde9511663a53f3659762af043a *inst/duckhts_extension/htslib/sam_mods.c
69e4c10eaaad5023640105bab74d7ba0 *inst/duckhts_extension/htslib/samples/DEMO.md
f43a3c66a1be1c12e3a7363b4907c863 *inst/duckhts_extension/htslib/samples/Makefile
98c5063e0272ae20581e8db7b2eebb79 *inst/duckhts_extension/htslib/samples/add_header.c
78898dc2cc9399015caeaa4d162c9f5b *inst/duckhts_extension/htslib/samples/cram.c
7c92844a52916ba1117c727a8e40ebb4 *inst/duckhts_extension/htslib/samples/dump_aux.c
25be92554330373549b693cc6b89d80c *inst/duckhts_extension/htslib/samples/flags_demo.c
a5816ca21ccf9d14e65c1936a30fd489 *inst/duckhts_extension/htslib/samples/flags_htsopt_field.c
cb54e72f945026b8b2438edbf42e6868 *inst/duckhts_extension/htslib/samples/index_fasta.c
bb7ee51ce714569049daa175168b63eb *inst/duckhts_extension/htslib/samples/index_multireg_read.c
f48cfccc3089cbaf3651e604e0723182 *inst/duckhts_extension/htslib/samples/index_reg_read.c
1167bf0e2db7c19f95a1785d44105b99 *inst/duckhts_extension/htslib/samples/index_write.c
9851c83ce337ccf3a3491c41da986e79 *inst/duckhts_extension/htslib/samples/mod_aux.c
1638140aaf3bf6f4c10c890ff79602ef *inst/duckhts_extension/htslib/samples/mod_aux_ba.c
1c150430c27a99c1ff07f635b943ec47 *inst/duckhts_extension/htslib/samples/mod_bam.c
fa71df98d3008771761b0154f99b539a *inst/duckhts_extension/htslib/samples/modstate.c
664a4bfc678928a170f2b62009135cfd *inst/duckhts_extension/htslib/samples/mpileup.c
0b8f5923f1abffb7b60c5fac432fe874 *inst/duckhts_extension/htslib/samples/pileup.c
0ea100148d2a2a84af6686eda29ad572 *inst/duckhts_extension/htslib/samples/pileup_mod.c
0c27a63edb281b42518c6324d20b6b79 *inst/duckhts_extension/htslib/samples/qtask_ordered.c
8bd8f8956e368dcbe0f21d85ea0893ef *inst/duckhts_extension/htslib/samples/qtask_unordered.c
020ee365658f4d9dca3443c975b6e144 *inst/duckhts_extension/htslib/samples/read_aux.c
e4011e35e78936b199153807930f4d13 *inst/duckhts_extension/htslib/samples/read_bam.c
5174a4e7adc048b4ba7ddc28d2bdb284 *inst/duckhts_extension/htslib/samples/read_fast.c
d2e666cbae04010b1f2a68b92d4b1fc7 *inst/duckhts_extension/htslib/samples/read_fast_index.c
7a1316a9835d557ab6056a2ae76916d0 *inst/duckhts_extension/htslib/samples/read_header.c
d5e45ffed298400b18cab523dbe72aa0 *inst/duckhts_extension/htslib/samples/read_refname.c
202750b60cb92eb07ed1c4dd4ad7db75 *inst/duckhts_extension/htslib/samples/rem_header.c
6e13aa4dd8e8270d6cea1cd81e412449 *inst/duckhts_extension/htslib/samples/sample.bed
573f6999a17bb23f0fce890ef4cc5eb8 *inst/duckhts_extension/htslib/samples/sample.ref.fa
15ef381612514ac9dc0118bca9bc9b8c *inst/duckhts_extension/htslib/samples/sample.ref.fq
f99522246f6b4e68b987d247f3d2bc83 *inst/duckhts_extension/htslib/samples/sample.sam
915c99bd6da7f682ada64726ce5a1139 *inst/duckhts_extension/htslib/samples/split.c
90899447d64853ca20d70654d0a5463a *inst/duckhts_extension/htslib/samples/split2.c
5920c379f42ebc33f26940362364850f *inst/duckhts_extension/htslib/samples/split_thread1.c
9ba514cef6b8cb0ca747def7aeed518f *inst/duckhts_extension/htslib/samples/split_thread2.c
5885d12f8a5a39d9c0c741620b0ee17d *inst/duckhts_extension/htslib/samples/update_header.c
6262950557bc21350a2d2caf091cc66c *inst/duckhts_extension/htslib/samples/write_fast.c
054378c5d14c420fb2dc0e401b20b1e4 *inst/duckhts_extension/htslib/simd.c
e4dbbd745780ada80e3824256c903d3e *inst/duckhts_extension/htslib/synced_bcf_reader.c
9afb9d34cf78a3602ea9c68adb74ebfd *inst/duckhts_extension/htslib/tabix.1
616bae090de681d5dc2c52bab82a8f6d *inst/duckhts_extension/htslib/tabix.c
a55d260a6c3e68dfe280b35f03898036 *inst/duckhts_extension/htslib/tbx.c
2b2511d513a82a0365dc066c1a1c3311 *inst/duckhts_extension/htslib/textutils.c
4995d2933bcd72486974af3e486d7292 *inst/duckhts_extension/htslib/textutils_internal.h
4dc352ec3db9ef804f6d720728e33d98 *inst/duckhts_extension/htslib/thread_pool.c
2e16113342c3d990e61cea8c67a1c0eb *inst/duckhts_extension/htslib/thread_pool_internal.h
556f60ca98d0facdff213bc9f9435d81 *inst/duckhts_extension/htslib/vcf.5
1451d480c5c3470e02375586345e5c68 *inst/duckhts_extension/htslib/vcf.c
a1765c57a7f7ec08dfba46d1d618cfc0 *inst/duckhts_extension/htslib/vcf_sweep.c
69d164661f5be9cc0785d2481484ea38 *inst/duckhts_extension/htslib/vcfutils.c
3373dd7cb28b7ac8570165f703b9acf3 *inst/duckhts_extension/htslib/version.sh
8f086efc00213a213c50f086bb5c6c12 *inst/duckhts_extension/include/bam_format.h
720cdf58421697bf58f548f0e7b82248 *inst/duckhts_extension/include/bam_site_counts.h
889ae6f31875cc9d38a62f81afdbdb92 *inst/duckhts_extension/include/bcf_field_vector.h
f24b85940b2b0e0c21fdcc739c686a22 *inst/duckhts_extension/include/bcf_filter_vector.h
b44927f9283763c0f0b55e103ab20e28 *inst/duckhts_extension/include/bcf_format.h
208ca0ff8b64797cece0efbc4bf49098 *inst/duckhts_extension/include/bcf_genotypes.h
395f3e74725c885f22902df946d1cc4d *inst/duckhts_extension/include/bcf_index_snapshot.h
b79acf72cba0c17c2afe2905880c934f *inst/duckhts_extension/include/bcf_scan.h
b6532b78f2d79879f430dba7fbc2023b *inst/duckhts_extension/include/bcftools_filter_config.h
161ffce73bddbe737cf06655a21d3e89 *inst/duckhts_extension/include/bcftools_shim.h
d2214afd2498bfd6a5595311aa6eedd9 *inst/duckhts_extension/include/cgranges.h
f3005b97b362cfad680a6de6aef61cac *inst/duckhts_extension/include/duckdb_alloc.h
d6a52ce04c868d7871ac46bee83738bc *inst/duckhts_extension/include/duckdb_list.h
ddef0ed8a596b2824d9e0db52be7558d *inst/duckhts_extension/include/duckhts_simd.h
5e64dfcb37a549506f2a42326c40fb96 *inst/duckhts_extension/include/duckhts_simd_internal.h
b9b53cf90648c5ed9be800e36b870a6b *inst/duckhts_extension/include/duckhts_simd_kernels.def
afd9b3035a0be199c72357fcd7a7f596 *inst/duckhts_extension/include/duckhts_somalier.h
6863969eb4401cde8ec4df3e03b7b928 *inst/duckhts_extension/include/duckvep_sql.h
8ea41635f12b975aae720c43a4d446a8 *inst/duckhts_extension/include/filter.h
f3bdb870fab13a472dafb2aefb81f403 *inst/duckhts_extension/include/hts_io_tuning.h
370fe8b9fd07bb20a7125b5632133f91 *inst/duckhts_extension/include/khash.h
d681385c1ae9ae5dc6a8dabbcdcec749 *inst/duckhts_extension/include/liftover_nw_limit.h
9321f5f3edef590d169028e82ae16170 *inst/duckhts_extension/include/quality_encoding.h
e449695cf689140fe97b6d21f56b78dd *inst/duckhts_extension/include/reference_cache.h
5f0a1945870004fdab49645bf54ab16e *inst/duckhts_extension/include/region_list.h
f7b2fa7224b7c83be60a41bbcd533329 *inst/duckhts_extension/include/seq_encoding.h
ed37be8c7fc0a53c782992dfa8b837a9 *inst/duckhts_extension/include/variantkey/hex.h
5eb1576efb0202c594fd9f2fef47d3d6 *inst/duckhts_extension/include/variantkey/regionkey.h
6aa6792ccd7b22c43568e0297f37ad07 *inst/duckhts_extension/include/variantkey/variantkey.h
a8939c5bbf2ee316460a5d92b27ac1c7 *inst/duckhts_extension/include/variantkey_compat.h
38ef80c843a343d1854cdc2b2af4942c *inst/duckhts_extension/include/vep_parser.h
77357b08702beab600b0f6b83ae872de *inst/duckhts_extension/include/wasm_http_hfile.h
b9ace6e40102a0ed01f3b6530b0e6ce5 *inst/duckhts_extension/include/wasm_socket_compat.h
19a2defa95b4b266c53bb40e5fe6dee4 *inst/duckhts_extension/interval_udf.c
54d0f2a9bf4cd935d2a4b798c10e1638 *inst/duckhts_extension/kmer_udf.c
c1dfe201dba32f0d2a9d409bf9ef6f38 *inst/duckhts_extension/libBigWig/COMMIT
1945f1b67d1caf39f6987fe5e6fe4a1d *inst/duckhts_extension/libBigWig/LICENSE
fb9ebc98c695e5ebc6ea834ebf39094c *inst/duckhts_extension/libBigWig/README.md
dd354ffc5759619dea4e3eef8a6685ba *inst/duckhts_extension/libBigWig/SOURCE_URL
2af5cebfae57140f05bfd42a7ec86954 *inst/duckhts_extension/libBigWig/bigWig.h
0a9e19bde5b9516df85adb0df75cf555 *inst/duckhts_extension/libBigWig/bigWigIO.h
6d0913cd174806538b448602633ca3c1 *inst/duckhts_extension/libBigWig/bwCommon.h
6256d2b71886919d2116e30f5ae1ea8f *inst/duckhts_extension/libBigWig/bwRead.c
19fe5b0fef2048717e89605906c73b0a *inst/duckhts_extension/libBigWig/bwValues.c
c9bedc075720b9b7c9ab41b65ed88b42 *inst/duckhts_extension/libBigWig/bwValues.h
4334010ad1201a607cd7cefa49e7cc5c *inst/duckhts_extension/libBigWig/test/test.bw
ed857caa464bab5778edbe68a3d6c370 *inst/duckhts_extension/libbigwig_hfile_io.c
3362953a7168f278c5a715fbcbe13aac *inst/duckhts_extension/liftover_udf.c
70bf15bb443aee2d5dd87015e59a5871 *inst/duckhts_extension/mosdepth_table.c
68a990445581ab56f13a03cbb481fd85 *inst/duckhts_extension/munge_udf.c
3c02d2b85267118afbbf60f65377e787 *inst/duckhts_extension/quality_encoding.c
71fa0c4e36f8ecff05f0319c2274fe65 *inst/duckhts_extension/quality_encoding_reader.c
d0ac751543a565d89141d0a8a62e8656 *inst/duckhts_extension/reference_cache.c
18064eb1743c9d3126bf15c5db65f57c *inst/duckhts_extension/region_list.c
fc61ccd15a996267999d8bb310ab02a3 *inst/duckhts_extension/samtools_idxstats_table.c
67e654fea2fcef8c22c0aa8539490cef *inst/duckhts_extension/score_udf.c
9cd011e2538e7f4cac5ab69b3a3865da *inst/duckhts_extension/seq_reader.c
623e5f04f07499dfbc125a3cd1f57be9 *inst/duckhts_extension/simd/duckhts_simd_avx2.c
fbd360d6abe95789a7947f31a7ee8ca1 *inst/duckhts_extension/simd/duckhts_simd_avx512.c
8282750058246b5555aed33404e52814 *inst/duckhts_extension/simd/duckhts_simd_dispatch.c
8f298c8875dfb71f0886064386433666 *inst/duckhts_extension/simd/duckhts_simd_neon.c
80ac0646e26e31d4db6b5db0d74d1bde *inst/duckhts_extension/simd/duckhts_simd_scalar.c
98890b195f05bfe46731043b419dbcdc *inst/duckhts_extension/simd/duckhts_simd_wasm_simd128.c
b71d8d7fe9520bc17b0f1ee050c31c19 *inst/duckhts_extension/somalier.c
d1dee36d35e4de67687aa9398670c24c *inst/duckhts_extension/somalier_bam_extract_sql.c
f50c7ed2d3124ea26087568252d43f2f *inst/duckhts_extension/somalier_contamination_sql.c
dbc8ed76af2be457b02906b61eaafbce *inst/duckhts_extension/somalier_matched_sql.c
555d9811d40a60d9c07dd7f14d1057a5 *inst/duckhts_extension/somalier_sql.c
7969e52ae038c61968501e9234a72b8e *inst/duckhts_extension/somalier_vcf_extract_sql.c
e44bbf08771629318fcedc34dddbf27b *inst/duckhts_extension/tabix_reader.c
cb2ae83d9ebb93807b9c471167ae6dab *inst/duckhts_extension/variantkey_udf.c
65c5a626006f317b1f4ed281677cde59 *inst/duckhts_extension/vep_parser.c
41f4219637a37ab394c6dd4f2e51986c *inst/duckhts_extension/wasm_http_hfile.c
654af0f0bb08471361e8e665165fcb85 *inst/extdata/aux_tags.sam.gz
1a7cdb966d6136d67029dfc713bf497a *inst/extdata/bad.bed
e3729e671ce345a83aa71342c60911be *inst/extdata/bam_materialize.sam
dea231b5f3c91848899dd137d90ad455 *inst/extdata/bam_offset.sam
f8172b117347f33c6a0ab5557061e28c *inst/extdata/bam_offset.sam.bgz
76676638f16252b30b92d3f87fbfb06b *inst/extdata/bam_offset.sam.gz
25e7bc210653e7d7b1b16c37f64fbcb1 *inst/extdata/bam_offset_gzip.bam
a8e03fd8e0dd7e628462892569abe55f *inst/extdata/bam_offset_uncompressed.bam
b5ebc9eec8b5dd91b53fb4a274fe1f08 *inst/extdata/bam_read_groups.sam
37d4fad587792091dff08e3f9ad7c02c *inst/extdata/bam_record_ends.tsv
f4a3610202de79c87d259f16519a73ed *inst/extdata/bam_scan_all_unplaced.bam
b1ddcbb9a4d332b4df7fcdae46578a91 *inst/extdata/bam_scan_all_unplaced.bam.bai
afcbb56bf84b702078cf4c0b669be3ab *inst/extdata/bam_scan_all_unplaced.bam.csi
5e19c9ec5f38d93259bdd23b1cbc006c *inst/extdata/bam_scan_all_unplaced.bam.legacy.bai
f7160d1aea60bb9537847284470aa66f *inst/extdata/bam_scan_all_unplaced.bam.legacy.csi
1e19a685b5577eccc64676a45923aa72 *inst/extdata/bam_scan_all_unplaced.cram
57cc895a7c47d1cbf0676baaaca2fa36 *inst/extdata/bam_scan_all_unplaced.cram.crai
18c7217d6111eacae9fda27317b20602 *inst/extdata/bam_scan_empty.bam
0f2c28d9ec0c73ccecdbf47519da567e *inst/extdata/bam_scan_empty.bam.bai
cc91e8bcfc33348ea67e0a3481bb998e *inst/extdata/bam_scan_empty.bam.csi
5e19c9ec5f38d93259bdd23b1cbc006c *inst/extdata/bam_scan_empty.bam.legacy.bai
f7160d1aea60bb9537847284470aa66f *inst/extdata/bam_scan_empty.bam.legacy.csi
127de4952411929d9a1e4c47ad9d78eb *inst/extdata/bam_scan_empty.cram
7029066c27ac6f5ef18d660d5741979a *inst/extdata/bam_scan_empty.cram.crai
b2b7ff86d889210102d226ab8c9aabb4 *inst/extdata/bam_scan_malformed.sam
ded33583354db779fc48cf3c657fdeb1 *inst/extdata/bam_scan_mixed.bam
d1230d592baba430563d9859ed71a52c *inst/extdata/bam_scan_mixed.bam.bai
664232502b1a0b62a86f8f78036e066f *inst/extdata/bam_scan_mixed.bam.csi
18334c91f537ff64feea859f52a3690e *inst/extdata/bam_scan_mixed.bam.legacy.bai
b8383ca69fedc4683d6ec515573d02d4 *inst/extdata/bam_scan_mixed.bam.legacy.csi
f1887b50f1a3b20ac8ad876894df63a2 *inst/extdata/bam_scan_mixed.cram
ceb4bebf8ed5c9c55415496f20042757 *inst/extdata/bam_scan_mixed.cram.crai
f07aac8d944b788cd01e55fb6623e9cc *inst/extdata/bam_scan_single.bam
b96101116cceea0690592000fba30407 *inst/extdata/bam_scan_single.bam.bai
29d03448d20dd0679bd8310d1bcd63cc *inst/extdata/bam_scan_single.bam.csi
d5ef305e495fada6bb57639f323ac5a1 *inst/extdata/bam_scan_single.bam.legacy.bai
7d662e9d69fe1cd6e9896de4ae7b3193 *inst/extdata/bam_scan_single.bam.legacy.csi
15f1aeef2537d17bd231e5dfbbe873a4 *inst/extdata/bam_scan_single.cram
003497a1a551308a0b4d0a8c6f445951 *inst/extdata/bam_scan_single.cram.crai
46bf008061e9ec200a8ca268e9b14ff0 *inst/extdata/bcf_cache_lifecycle.vcf
10beb1d7b27957a96856a55a71b30248 *inst/extdata/bcf_filter_list_regression.vcf
6bebabbf54ddc20af173577bbdfc3bb6 *inst/extdata/bcf_format_type_clash.bcf
4c0828ba94ff0e33142833d29d8f0ad2 *inst/extdata/bcf_info_str_clash.bcf
7e015221d49c1b508a6b35d0ee4f1de9 *inst/extdata/bcf_info_type_clash.bcf
a65ec5118355ac2122ebadccc00bd328 *inst/extdata/bcf_literal_contigs.bcf
ea2724c2e54910bf6da0c998df3a5db2 *inst/extdata/bcf_literal_contigs.bcf.csi
c21500b946fa5710196dac1ffdf31e74 *inst/extdata/bcf_literal_contigs.vcf
b635ebe24c11d6315ec02bc84baef08f *inst/extdata/bcf_literal_contigs.vcf.gz
be9b134dab2e370438c8f4e3606f54fc *inst/extdata/bcf_literal_contigs.vcf.gz.tbi
4cf815585a3dcd89643c9070ee468a18 *inst/extdata/bcf_scalar_counts.bcf
7b8a8be221b7c2d5c3ff263a36ddecef *inst/extdata/bcf_scalar_counts.bcf.csi
a7aa9f986fccf86b09b507f6797ecbcb *inst/extdata/bcf_scalar_counts.vcf
c519ddc7c9468e200a3bc5a7fedcd152 *inst/extdata/bcf_scalar_counts.vcf.gz
aa3cb2cd1c06e69562a5d7bad7413b0e *inst/extdata/bcf_scalar_counts.vcf.gz.tbi
8e006ec9582009fc56a1616e5dc67010 *inst/extdata/bcf_scan_contigs.bcf
c2e596d98fcdc11691f6f8af12aadebb *inst/extdata/bcf_scan_contigs.bcf.csi
7f0045f0fe0a1c8bec2d8fb93bb713ff *inst/extdata/bcf_scan_contigs.empty.bcf
98dce0d2a86879ff3814a94792b38ef2 *inst/extdata/bcf_scan_contigs.empty.bcf.csi
90c7d0dc0d3aae8474710a0ad73199e1 *inst/extdata/bcf_scan_contigs.empty.vcf.gz
e3b2e0b612551a1e91aa62c10c44bed0 *inst/extdata/bcf_scan_contigs.empty.vcf.gz.index.csi
4cb176febbc8c26d717a6c6e67b9c905 *inst/extdata/bcf_scan_contigs.empty.vcf.gz.index.tbi
abd4cc644200e4812df5ccbf185e3a4f *inst/extdata/bcf_scan_contigs.full.vcf.gz
469262b80cc22a179865c9bf0a4d0ada *inst/extdata/bcf_scan_contigs.full.vcf.gz.index.csi
fbb48c2c7cd524e891c35b7bc11f6401 *inst/extdata/bcf_scan_contigs.full.vcf.gz.index.tbi
01c9b6bbc25b859aebf67f74d9e265c3 *inst/extdata/bcf_scan_contigs.none.vcf.gz
fe379634797c371491f25bda5e067d59 *inst/extdata/bcf_scan_contigs.none.vcf.gz.index.csi
698f40d722cfee51932a386cb0b2f937 *inst/extdata/bcf_scan_contigs.none.vcf.gz.index.tbi
4dcaa2047c179520b1259d7671c8a0e9 *inst/extdata/bcf_scan_contigs.partial.vcf.gz
ed9c79ddcbda5e1e2f7d3f9153831e85 *inst/extdata/bcf_scan_contigs.partial.vcf.gz.index.csi
953769f59bf8df49d7ea3ee4de9c4bb7 *inst/extdata/bcf_scan_contigs.partial.vcf.gz.index.tbi
14770f56e12737776f064883d5917340 *inst/extdata/bcf_scan_contigs.shifted.bcf
a412265e5c6bd9f4162b9f67ca66f428 *inst/extdata/bcf_scan_contigs.shifted.bcf.csi
cd82b70738c7624380bab7b9d1325ad1 *inst/extdata/bcf_scan_contigs.shifted.vcf.gz
7a7a1c01a7d46a1a64cba5374e13d9a0 *inst/extdata/bcf_scan_contigs.shifted.vcf.gz.index.csi
afca895d38b6a0db1edcc8ae33f35155 *inst/extdata/bcf_scan_contigs.shifted.vcf.gz.index.tbi
6f0ab97c799fe0e01671dc2150c09d02 *inst/extdata/bcf_scan_contigs.vcf
ccd40107d849d61c02af69543b63d9a0 *inst/extdata/big.bam
5d2980e7e0fda8a2e946d36e32ef1563 *inst/extdata/big.bam.csi
cfdd101d3d08fc60f60f2aa63a7055d4 *inst/extdata/ce.fa
caf7cc4f77dcf116369d0b48ff83d5b4 *inst/extdata/ce.fa.fai
629a819966403880f878efe32d728104 *inst/extdata/colheaders.tsv
2078f42073b1eb8f4f2f4d8be70b9ded *inst/extdata/duckvep/ensembl_core/grch37/attrib_type.parquet
59018ed2b7ba6b28a08bbe6e0de95849 *inst/extdata/duckvep/ensembl_core/grch37/coord_system.parquet
9227c6ff956456e967a754843435e7ba *inst/extdata/duckvep/ensembl_core/grch37/exon.parquet
02a9cf49e82375741d73bc4aefcbf2cc *inst/extdata/duckvep/ensembl_core/grch37/exon_transcript.parquet
47a679eaab6321debddcdbdde17103d5 *inst/extdata/duckvep/ensembl_core/grch37/gene.parquet
b8a150f766372aaf6dd12d840b57100f *inst/extdata/duckvep/ensembl_core/grch37/manifest.tsv
2b4bf79af16067c345f127b233c73aa8 *inst/extdata/duckvep/ensembl_core/grch37/reference_chunks.parquet
5d5f63989da0de5bc6a080ed26482df8 *inst/extdata/duckvep/ensembl_core/grch37/seq_region.parquet
049883064aa3c8155b49b85b485705cb *inst/extdata/duckvep/ensembl_core/grch37/seq_region_attrib.parquet
42cf927a021aac2dbcf2c66702406ba7 *inst/extdata/duckvep/ensembl_core/grch37/transcript.parquet
fa296d162c1c0955c2cb29892c3f637a *inst/extdata/duckvep/ensembl_core/grch37/transcript_attrib.parquet
b2aaeb14d0feb188cc7a4785e9fb93e0 *inst/extdata/duckvep/ensembl_core/grch37/translation.parquet
31180a6df28f3dc1f8a3cf2ee7373fe9 *inst/extdata/duckvep/ensembl_core/grch37/translation_attrib.parquet
b3a8db558336a77aa3757bfa6ddad1d5 *inst/extdata/duckvep/ensembl_core/grch38/attrib_type.parquet
980059808617d94dab55eaf81fb7b5ff *inst/extdata/duckvep/ensembl_core/grch38/coord_system.parquet
bacd5e200bfab5b1fe60ccc39d77f85d *inst/extdata/duckvep/ensembl_core/grch38/exon.parquet
0db34c54a34541b52010126ba0e72161 *inst/extdata/duckvep/ensembl_core/grch38/exon_transcript.parquet
2c73170d6329d8df5f3c06b5455ea550 *inst/extdata/duckvep/ensembl_core/grch38/funcgen_feature_type.parquet
403c78c79b2e035ce4597ccba80a2e56 *inst/extdata/duckvep/ensembl_core/grch38/funcgen_motif_feature.parquet
ccf16363825d25ac2aefb04c6ff49b8a *inst/extdata/duckvep/ensembl_core/grch38/funcgen_regulatory_feature.parquet
1c44cdf7d3b3d985808e1734e453c644 *inst/extdata/duckvep/ensembl_core/grch38/gene.parquet
fefcfde45837f4011d7ef337b3686d3f *inst/extdata/duckvep/ensembl_core/grch38/manifest.tsv
b0fd2f6aad145a796d39554d129fd305 *inst/extdata/duckvep/ensembl_core/grch38/reference_chunks.parquet
08c1808b3afd38cd04d0fd46fa70f9e9 *inst/extdata/duckvep/ensembl_core/grch38/seq_region.parquet
fff1a448d1583e7f369418d777369c52 *inst/extdata/duckvep/ensembl_core/grch38/seq_region_attrib.parquet
a30dce5ef3d35c0b9cf33a1bc8596f13 *inst/extdata/duckvep/ensembl_core/grch38/transcript.parquet
29025755665ab3aeef596aafd72c746f *inst/extdata/duckvep/ensembl_core/grch38/transcript_attrib.parquet
29c79a5f111ccfa5a693434325df77b0 *inst/extdata/duckvep/ensembl_core/grch38/translation.parquet
761147599d90bfc0604b397e4c7732be *inst/extdata/duckvep/ensembl_core/grch38/translation_attrib.parquet
aef3debdac9177c1a819ab1da1207f3e *inst/extdata/duckvep_clinvar_terminal_partial.fa
5dd0141ef70de0468e0b6f9df7c4f243 *inst/extdata/duckvep_clinvar_terminal_partial.fa.fai
012a6dd0a3d1bcfce0844f655af4eeea *inst/extdata/duckvep_hgvs_anchor.fa
feafc539436c464a51f99bb84013f949 *inst/extdata/duckvep_hgvs_anchor.fa.fai
9f1f8786e592ec5a6eda09d6ce2e4b45 *inst/extdata/duckvep_indel_translation.fa
d4213a0c2c20e4743810002f1f2c96f4 *inst/extdata/duckvep_indel_translation.fa.fai
1d4982f36fee7f152074f075c4f76c9e *inst/extdata/duckvep_minimal.fa
dfa50a730ffc2b4157fc54c6b041479f *inst/extdata/duckvep_minimal.fa.fai
03aa0d123969a18dc1e3bb75c7fec16c *inst/extdata/duckvep_n_indel.fa
84a2901a881111a4af53508f38921a7c *inst/extdata/duckvep_n_indel.fa.fai
92d7b90091b3f1c341c22e91e13ba16f *inst/extdata/duckvep_repeat.fa
c20c5ecdff0afbb5c7a271647f23c2b7 *inst/extdata/duckvep_repeat.fa.fai
87f34843ec16e1134274ca95521b1aa8 *inst/extdata/duckvep_terminal_partial.fa
060448ca650e154b750455eb1acd7a52 *inst/extdata/duckvep_terminal_partial.fa.fai
7ec3452c8417b88adeed56efd97ad679 *inst/extdata/empty-tids.bam
c48727a86610c27aaa9c0954f8d2d99b *inst/extdata/empty-tids.bam.bai
c40e3f44c09520512bd91d5df6c9c9d8 *inst/extdata/empty-tids.bed
7923af819facba6758bc0c0e0498c374 *inst/extdata/ensembl_release_consequences.vcf
3d0b94b2383baa2e8a12b232262b15ba *inst/extdata/faidx_invalid.bed
e1d8734673234c4add24e3cdd6e6af52 *inst/extdata/faidx_invalid.fa
8b0a5cb2c7f89691844a453fd57324d3 *inst/extdata/faidx_invalid.fa.fai
6e88f2c75d3641df7f593436b3df373c *inst/extdata/fastq_long_qname.fq
68984e7a4be9cd9a3541346e16212620 *inst/extdata/fastq_multiline.fq
f8374a4af52cb9f5cc938e04730227b2 *inst/extdata/fastq_truncated.fq
5058e161d7bb4ccae9c03e85ab2686c3 *inst/extdata/fixed_count_arrays.vcf
80a11a55eacef16f6025dd8cffab4698 *inst/extdata/fixture_mixed.bam
cfbd560dde3cf8d780330605dea0bc45 *inst/extdata/fixture_mixed.bam.bai
a9ebf4ece3bcba1f1270bfbc53e95a7b *inst/extdata/fixture_mixed.cram
69f637d8c8c5a067b005bc1de49a21ba *inst/extdata/fixture_mixed.cram.crai
718fee6ce7e020cfe8919d7ad73323d0 *inst/extdata/fixture_mixed_min_depth_regions.bed
6f87dbe6a51ac02eb919fbe5ea563768 *inst/extdata/fixture_mixed_regions.bed
e6ba1e2628c6c8170ecd105cfe4b3627 *inst/extdata/fixture_paired.bam
01a50dd3584677336a7d46fe7531734e *inst/extdata/fixture_paired.bam.bai
82fad9fe3e2d4c3b3c693bad5f46eddb *inst/extdata/fixture_ref.fa
a21a6e7f5332285dcc880654ffb8a8e2 *inst/extdata/fixture_ref.fa.fai
2a1a103954f65dd58813915e0754f126 *inst/extdata/fixture_single.bam
df561e081c07f71bc22f4d6643e13434 *inst/extdata/fixture_single.bam.bai
d6bac93a1bfed39c6896ebf7bf4af09f *inst/extdata/fixture_unmapped.sam
95f1de7557e5fea2299311bdc7063243 *inst/extdata/format_string_list.vcf
fc431af724da7ba15c848a82520b5f1b *inst/extdata/formatcols.vcf.gz
aed70d556c515d25b3542059e98e35d3 *inst/extdata/formatcols.vcf.gz.csi
9029a298768ca990dbe91f7ad653e0ff *inst/extdata/full-fragment-pairs.bam
a098c8d5727d8d1388ca38181bedf406 *inst/extdata/full-fragment-pairs.bam.bai
b4fdc3584882511bf8aefd59da940a33 *inst/extdata/geno_calls.bcf
a119454952875777eabc2b1f7f5db0c9 *inst/extdata/geno_calls.bcf.csi
70dd802c22dc0b9d7406a2675cd91cee *inst/extdata/geno_calls.vcf
3ee6c2012f359b640a63a787a73be953 *inst/extdata/geno_calls.vcf.gz
041b21a63f7ccb66d6ef33e224d96739 *inst/extdata/geno_calls.vcf.gz.tbi
9d48b7564a6260a15ede50da8647908a *inst/extdata/geno_format.bcf
56c10c415670a659a82d88380cd2fd77 *inst/extdata/geno_format.bcf.csi
a876aca0b12b1856f17a0b6a04654f8a *inst/extdata/geno_format.vcf
8505b86859d4dc623bf868186ef06d16 *inst/extdata/geno_format.vcf.gz
478ef0b41ce9a5a144cd066c8bb7def1 *inst/extdata/geno_format.vcf.gz.tbi
05e5c1c10df3c95d85769eb5552db36b *inst/extdata/geno_format_case.bcf
48f4ec589bc4589596db689e52725649 *inst/extdata/geno_format_case.bcf.csi
17542c5b049b630df0520256d78ac9f8 *inst/extdata/geno_format_case.vcf
169793fc35ee4d0022542e390c462e31 *inst/extdata/geno_format_case.vcf.gz
144ae8a0bb0831143e92ca839ded9865 *inst/extdata/geno_format_case.vcf.gz.tbi
6a1a78655565e8aa390acd98c9655910 *inst/extdata/geno_gt_allele.bcf
83c799d9681049cb187f857a1e4e0768 *inst/extdata/geno_gt_allele.vcf
736d6a44b2a84b287516feb84aab8fac *inst/extdata/geno_gt_allele.vcf.gz
df33c7939dfdd8cced363aac6c27276b *inst/extdata/geno_phase_partial.vcf
1c24ec9e21559cbfb92c5b5bd235f37c *inst/extdata/geno_ps_number.bcf
00e69f2c7bf0c6ecd0483734b8ef0682 *inst/extdata/geno_ps_number.vcf
efe3bdb963b4a83b9c9ace6ae22806d4 *inst/extdata/geno_ps_number.vcf.gz
57ee447f74dd380bc5f0d9a478ab0f95 *inst/extdata/geno_ps_payload.bcf
39382885d11c23d8feb7821f531ba509 *inst/extdata/geno_ps_type.bcf
ef2bf95f6cbd5676b609545d430f2251 *inst/extdata/geno_ps_type.vcf
906fa4f883c3dcd845670875de5c7f8c *inst/extdata/geno_ps_type.vcf.gz
5e3deb4da62751ad18177be5aae569c4 *inst/extdata/geno_ps_width.bcf
84cc90ac69d0df3be85f5e293dcf3f1f *inst/extdata/geno_ps_width.vcf
4502410ba1a8b7a9f8cfdfbbda2f5ed6 *inst/extdata/geno_ps_width.vcf.gz
b8e7cd933dc3e3421230ebabdf068faa *inst/extdata/geno_raw_gt.vcf
8298225e254343717cbf59b81997964e *inst/extdata/geno_vcf44.vcf
e62a50478ab7e02db08c780f7c992fc9 *inst/extdata/genotype_ploidy_edge_cases.vcf
f2cf62e951765dc620a19975faa3fc20 *inst/extdata/gff_attrs.gff3
930e9a3645bbeb5a7bb724d58b7bb7a7 *inst/extdata/gff_file.gff.gz
d89c706364e3c19b452810815aeda860 *inst/extdata/gff_file.gff.gz.tbi
1178a1b1159170187ec205dce121b5d0 *inst/extdata/gff_strict_extra_field.gff3
b0187f30e9dd4be4451b9be4818cd1d6 *inst/extdata/gff_strict_invalid.gff3
e2a35618768e6322f8e6a5bb6077e3fe *inst/extdata/gff_strict_invalid_attr.gff3
9ac94eeeb5281f22b3adc59a0a74458e *inst/extdata/gff_strict_invalid_end.gff3
4a915c208ea815bb44ca15798d019be4 *inst/extdata/gff_strict_valid.gff3
3fa4112063251bb1e42247612eabbb8f *inst/extdata/gtf_attrs.gtf
f4d195da2debbf499e46e46fc11e7973 *inst/extdata/header_tabix.tsv.gz
3a0494761cad4363b78fd1b3e021152a *inst/extdata/header_tabix.tsv.gz.tbi
248db259c9d231f96708e25f82980179 *inst/extdata/interleaved.fq
dd5c64690a6ee0e2f0cfe499a284fd12 *inst/extdata/legacy_phred64.fq
4334010ad1201a607cd7cefa49e7cc5c *inst/extdata/libbigwig_test.bw
5b8cd5db01739b738fdca6a81e6afa23 *inst/extdata/liftover_chr23_alias.chain
8473a7e3ef59d711c02a2740f1c31e21 *inst/extdata/liftover_chr23_alias_dst.fa
c42ff120c4623e1458e7580056ed8fac *inst/extdata/liftover_chr23_alias_dst.fa.fai
990a24ebb36f034cbd35e38bb1ece166 *inst/extdata/liftover_chr23_alias_src.fa
4637ba14a52aaa02433655c6f929d324 *inst/extdata/liftover_chr23_alias_src.fa.fai
f6aee3927186544ae24a5bbf04da6501 *inst/extdata/liftover_clip_pad.chain
20bdd7627a36e994f0aaa82aba438c9e *inst/extdata/liftover_clip_pad_dst.fa
b97470aba47943389a8306a117cde2ee *inst/extdata/liftover_clip_pad_dst.fa.fai
408f4394f99a71e146d512073b4b225a *inst/extdata/liftover_clip_pad_src.fa
796ceb713d715313dd074d3bb872fcc0 *inst/extdata/liftover_clip_pad_src.fa.fai
6012791fbc5a9cb7778360e4e4044c52 *inst/extdata/liftover_nw_limit.chain
2ef2bf52d182454ebb2aa9f07277d77b *inst/extdata/liftover_nw_limit_dst.fa
3912d65e0dc447fe678ffab88bdaf424 *inst/extdata/liftover_nw_limit_dst.fa.fai
d07945d9f672403d142c266b42a6821d *inst/extdata/liftover_nw_limit_src.fa
1507ae64f6351dbf1d99e18beae9a275 *inst/extdata/liftover_nw_limit_src.fa.fai
df5411063cfdd45fcb1f925a55511ade *inst/extdata/liftover_repeat.chain
1ff1bf6957b9f37a1b3c8811d497cc12 *inst/extdata/liftover_repeat_dst.fa
169360606e499277e92cfc9c23851a57 *inst/extdata/liftover_repeat_dst.fa.fai
32a2fec92b299a0a2f2c0235f4fc5ea3 *inst/extdata/liftover_repeat_src.fa
728468ecf59ee25584d48d352f64d9df *inst/extdata/liftover_repeat_src.fa.fai
e99811eedd5093a947aefed1d97329ad *inst/extdata/liftover_star_refadd.chain
77cd91d221b37f2da44672c4c00cd84a *inst/extdata/liftover_star_refadd_dst.fa
45a60d6bae19459261f9f6fbd5dcb11d *inst/extdata/liftover_star_refadd_dst.fa.fai
d6a3a208966101277526a54ccd2ecc3a *inst/extdata/liftover_star_refadd_src.fa
215ac065b103fa11f27c0fd720250ce3 *inst/extdata/liftover_star_refadd_src.fa.fai
e0ec5011ab0477febef8f9c7e45b3281 *inst/extdata/liftover_star_swap.chain
3c6ab8e46238e84f085540f8277dd185 *inst/extdata/liftover_star_swap_dst.fa
cacac51b58eed9cc2934fb8ddfa881c6 *inst/extdata/liftover_star_swap_dst.fa.fai
30ec3a7d00ba8d813172655be3758be2 *inst/extdata/liftover_star_swap_src.fa
117cc73fd5149a069571e03ef077269b *inst/extdata/liftover_star_swap_src.fa.fai
eb90dac44035025c1433c89212787b96 *inst/extdata/malformed_bad_pos.vcf
4e6d64cf882019fd136c2148b03f7af7 *inst/extdata/mapping_number_families.vcf
d0293c3261f7c60b5ab6d8a38a336b6a *inst/extdata/meta_tabix.tsv.gz
71674b4842d4fd13d7434a34e3232c4a *inst/extdata/meta_tabix.tsv.gz.tbi
d41d8cd98f00b204e9800998ecf8427e *inst/extdata/missing.bed
850dc34ada8d7023ee7146c7953da90b *inst/extdata/nanopore.bam
198e4dd5d394a931565bd5e8df8a4375 *inst/extdata/nanopore.bam.bai
ca840538454e5a04e5d14f3ae75217b1 *inst/extdata/nuc_with_n.bed
214530692e9b28e65f17d9cfee5620cd *inst/extdata/nuc_with_n.fa
9d0e4df1593cf7d0c84ea741f095766d *inst/extdata/overlapping-pairs.bam
a69ea151c3d51cfd19f023d1852ca48f *inst/extdata/overlapping-pairs.bam.bai
895d22358e60c319cb56c33f4571dfb2 *inst/extdata/ovl.bam
4a7a1173ea5b032280728cf98980b32e *inst/extdata/ovl.bam.bai
91888d15b994fb97a347be3c82e9b759 *inst/extdata/parallel_empty_contigs.bam
44017cd693fd7cce40eda0a55b5f1f73 *inst/extdata/parallel_empty_contigs.bam.bai
e7576013a2a4cfc843130eff617ea527 *inst/extdata/parallel_empty_contigs.bcf
1cb71253d787009c2867430c349f2769 *inst/extdata/parallel_empty_contigs.bcf.csi
830fb8987c219634244eaa68941fec1d *inst/extdata/parallel_empty_contigs.vcf
8583a37cb25fe73d7dc8925652804942 *inst/extdata/parallel_empty_contigs.vcf.gz
9f978fe03cf1a2d047683b8c2e578eae *inst/extdata/parallel_empty_contigs.vcf.gz.tbi
c007fe648c36c22592edf72a2874799e *inst/extdata/phased_genotype_fields.vcf
c0f38afc0194d9d791d875ea7fbe2a9b *inst/extdata/r1.fq
8ee7dbe0739320d25ab8e9f0eef0251e *inst/extdata/r2.fq
1c23eaabeb31d8cbafe19d6e5b3a5999 *inst/extdata/range.bam
228b8278fbcb305773a6839df44b640e *inst/extdata/range.bam.bai
f3802d15f9b780fef5427c356353bd85 *inst/extdata/range.cram
f0b65f254ccdd75b45aef37b309df9eb *inst/extdata/range.cram.crai
cd082259f3da528d743beb05e22085f6 *inst/extdata/region_names.fa
8a01b90199cc3ec293397869d36889a0 *inst/extdata/region_names.fa.fai
57bf829cc2d61e38a8665c207488c783 *inst/extdata/region_names.fa.gz
8a01b90199cc3ec293397869d36889a0 *inst/extdata/region_names.fa.gz.fai
7dea362b3fac8e00956a4952a3d4f474 *inst/extdata/region_names.fa.gz.gzi
ba1f5feb4280975fbe680f6cdc8723fc *inst/extdata/region_union.bcf
74b689e11460a9d8a52994f5894f2802 *inst/extdata/region_union.bcf.csi
b75c3892e3ace1afa560dece70d3e030 *inst/extdata/region_union.vcf
83f21bfa113915a18a89f37927d485da *inst/extdata/region_union.vcf.gz
dc97ad2cee70ec82be0a3dc01d6da7e0 *inst/extdata/region_union.vcf.gz.tbi
c114fa4ae6352b17bc2e9127b4d8aba3 *inst/extdata/region_union_no_contig.index.tbi
4cc772faf8cefa8e35f642bb93a15fdd *inst/extdata/region_union_no_contig.vcf.gz
2d298fb75099fbf0c1eda326536df856 *inst/extdata/rg.sam
8e15c570193a84507694dfcf97dc646f *inst/extdata/rg.sam.gz
e65167395c5cc08c6ff33ffd117b21d8 *inst/extdata/rg.sam.gz.tbi
78898ca1eea44c297de5a3c01f32ff4c *inst/extdata/score_as.vcf
c8a2bd96ad5cc9b275c3ed87b857bdc8 *inst/extdata/score_chrprefix.vcf
39ae6b2ecb550198d388abd07fb73357 *inst/extdata/score_columns.tsv
3ee4ad6c3fb16d4295d1378e89613320 *inst/extdata/score_dosage.vcf
7cf975cd8f26cb7668605e1be5cde707 *inst/extdata/score_gwas_summary.vcf
be6251a547a6b160a72380bc7184ce12 *inst/extdata/score_input.vcf
dac50b48718024ca8d69cfd534c0cd05 *inst/extdata/score_missing_ds.vcf
3b1c62e5ae55355127232e3bfb008cc9 *inst/extdata/score_missing_gt.vcf
635b20ef4ba9f7e8793a26323b3728e2 *inst/extdata/score_regions.txt
238a2160fec2d30bb2916b191c57b39d *inst/extdata/score_summaries.list
068b09ec35c095e32a8daf427cf369da *inst/extdata/score_summary.tsv
068b09ec35c095e32a8daf427cf369da *inst/extdata/score_summary_CNT.tsv
ef43823e034efc34593da380402320ed *inst/extdata/score_summary_bolt.tsv
10ad07297e795b1092e98c675d16add4 *inst/extdata/score_summary_custom.tsv
65474b5be26f36c5df77e84282945f75 *inst/extdata/score_summary_dir/README.md
a23884c245f85c9cc46b24074065b6f9 *inst/extdata/score_summary_dir/nested.tsv/ignored.txt
068b09ec35c095e32a8daf427cf369da *inst/extdata/score_summary_dir/score_summary.tsv
484f9aa616a89c1d736c549790806405 *inst/extdata/score_summary_dir/score_summary.tsv.tbi
02d23332c15b9c8386582646d9171b23 *inst/extdata/score_summary_dir/score_summary_na.tsv
484f9aa616a89c1d736c549790806405 *inst/extdata/score_summary_dir/score_summary_na.tsv.csi
25905a91e8b2b9129286723d60da00ac *inst/extdata/score_summary_log10p.tsv
085916aa927ae3ae9b00ba996c9d270c *inst/extdata/score_summary_metal.tsv
6f30fe59735a6345a7d2a681bf621940 *inst/extdata/score_summary_mismatch.tsv
02d23332c15b9c8386582646d9171b23 *inst/extdata/score_summary_na.tsv
20e8be59ff072c63f3f6646e1a22ae3f *inst/extdata/score_summary_no_snp.tsv
9dc48f00305fd0d2c6ebb40c3b87bbd3 *inst/extdata/score_summary_or.tsv
4a6e64fa93747906a0ebfb961940b7fa *inst/extdata/score_summary_pgs.tsv
9caeea2bc59d930c414ce56a15989f1c *inst/extdata/score_summary_plink2.tsv
7dc09de79fd79788bfc50e78c4b89ae7 *inst/extdata/score_summary_regenie.tsv
7d214dc101a720083085887bc0a09c7e *inst/extdata/score_summary_rsid.tsv
59da68d1a0c56d22974f49b80aa4e011 *inst/extdata/score_summary_saige.tsv
529a2cc8f01bb62f0f9c76d7b83129ea *inst/extdata/score_summary_smallp.tsv
3155909df0e451ade23fffdb5dd85970 *inst/extdata/score_summary_ssf.tsv
635b20ef4ba9f7e8793a26323b3728e2 *inst/extdata/score_targets.txt
a0343229edadca13a01efa29dfb9e42f *inst/extdata/somalier_brace.bam
f0e0622da4b11f39525b54a0b537ab7b *inst/extdata/somalier_brace.bam.bai
c58e13f4c6f9dcaf7d4e6401558ccafb *inst/extdata/somalier_brace.fa
739e70315f274163bcf39f1e3723268a *inst/extdata/somalier_brace.fa.fai
3a8cac363f573fcd70ac18724144d43e *inst/extdata/somalier_sites.vcf
922d22189a603ebb2311645d54c5f090 *inst/extdata/spec_standard_corrections.vcf
66d32def38168136f0d5a0a524892baf *inst/extdata/targets.bed
027212190bc3777423c0a20fa81b83c6 *inst/extdata/test_vep.vcf
b61a5de8f859b6449471c1bcab1808ff *inst/extdata/test_vep_snpeff.vcf
772f8c516aa0fed608823d611406de84 *inst/extdata/test_vep_tidy.vcf
f4942b236e66a028bc8bca7843be4ac6 *inst/extdata/test_vep_types.vcf
0a3a48d8774fcb7b5120277ebf7b00ff *inst/extdata/tidy_chunk_boundary.vcf
1f63b7a9753b8d04cc99747b9cd21b15 *inst/extdata/track.bed
21219e0ab8102c7a9aee368268beb0bd *inst/extdata/unordered.bed
dac6b73f431e51a58577cd7b251471bc *inst/extdata/vcf_file.bcf
763f4e15adcd1d7a8f77910929e8ec7c *inst/extdata/vcf_file.bcf.csi
d14af147f8264dd39bdcd6eb9e7c4dfb *inst/extdata/vcfpp_manifest.tsv
7e72cc3d4510268fe1edbec19316e136 *inst/function_catalog/functions.md
04dcbc9c786089f0ed4f34df6723e0d1 *inst/function_catalog/functions.tsv
29ac1eb284aacac7ff9c9131610f66d0 *inst/function_catalog/functions.yaml
b942298e32c62227e7ba47bd2815efb6 *inst/function_catalog/reference.md
8ec4513b164883868ea450410c40e297 *inst/htslib_config.R.in
bfaeebdea98af6e3bf1f63bac8a9a841 *inst/patches/duckdb_capi_strict_prototypes.patch
3522db21f072daa923ba227c434d1c39 *inst/tinytest/test_bam_bed_coverage.R
b47122602f68049c2a77753fc8c2e207 *inst/tinytest/test_bam_file_offset.R
b00691de2ca9390ec9c61704fa6e4af4 *inst/tinytest/test_bam_materialize.R
7f8b9c5df5169be2deeaec9ce60e2500 *inst/tinytest/test_bam_scan.R
c134cb4c4f4ab03747741b7c39f5d69f *inst/tinytest/test_basic.R
381a8261715b67e7f866001d9dffae30 *inst/tinytest/test_bcf.R
8c28b3b67c25c0306b23a506d767ce36 *inst/tinytest/test_bcf_regression.R
42af061d32370e09c7a8b1b5b2d3d97b *inst/tinytest/test_bcftools_norm.R
ee5e4bed01b0532ed7c14ccfb788564d *inst/tinytest/test_bigwig.R
735e47199d2acef5c476a0d9d051af3d *inst/tinytest/test_bin_counts.R
023d2ba68ea4a99e0a5c64bfd3ce6446 *inst/tinytest/test_cgranges_api.R
d3d4aa1c2a3e55e9a53224a8edff143b *inst/tinytest/test_cigar_utils.R
57e731f1e48634af7194e9e03432f5f6 *inst/tinytest/test_connection.R
e24e6582b3db507c15da4770f5864ed5 *inst/tinytest/test_convert_parquet.R
aba4eadf598a35f81b5078c2f0cb8efc *inst/tinytest/test_duckvep.R
ffd397cf74af41b06c1783637da68fe1 *inst/tinytest/test_duckvep_haplotypes.R
e626a0231d5db0511e7f323608f3a3b3 *inst/tinytest/test_duckvep_phase.R
6245f3f8c4a255066c54795d272c446e *inst/tinytest/test_fastq_qc.R
6a357fa1bcc1191240f7fc5869e92cfd *inst/tinytest/test_geno.R
2c008b62bc658bb7b23f1938da4a81cf *inst/tinytest/test_htslib_contract.R
a82d34c6b9e6627a44c31b2097c6476f *inst/tinytest/test_indexes_bgzip.R
b9fa5a1b2295b16ff44d595496acabb9 *inst/tinytest/test_integration.R
b83e1b50fc63be2af16bbc373824b6c1 *inst/tinytest/test_intervals.R
69fac3a7accb061dc5384c05a1d44a64 *inst/tinytest/test_liftover.R
92374488320d3696d34fa60abea19581 *inst/tinytest/test_liftover_stress.R
17331b93d38af657cc14f96759b3f587 *inst/tinytest/test_mosdepth.R
1a1e8c5470335bba3adfe8a3701762e8 *inst/tinytest/test_multi.R
74f31d35bc95094e09e2f304f78b8247 *inst/tinytest/test_munge.R
6b5236ee934a29e8f6fb0abe09996f5f *inst/tinytest/test_munge_threading.R
c2a8a21099dd47a657b2bdbbfc7c27e3 *inst/tinytest/test_native_marker.R
df1ba30ac79e5e55f212e361dd51b56f *inst/tinytest/test_parallel_empty_contigs.R
20f52cae074cf80b4667a5c251300c75 *inst/tinytest/test_pileup.R
32bf61af9a934bc8e095e97c13de4723 *inst/tinytest/test_quality_encoding.R
ed45303a9ce336392c23d527f3dd3aac *inst/tinytest/test_reference_cache.R
7a6cb3d518dc3326bf5205ead8945e89 *inst/tinytest/test_region_lists.R
fb7233f3b3ced53ec23e159988936184 *inst/tinytest/test_samtools_idxstats.R
ec61d5fd517766da49154bd18cdfb2d4 *inst/tinytest/test_score.R
a0c4c65057261600216ec283b8fc8b67 *inst/tinytest/test_seq_ops.R
48cc49cc38697210bc4358805093b217 *inst/tinytest/test_somalier.R
2ea0668e88b9e56dd12f72227104fd0a *inst/tinytest/test_somalier_extraction.R
69e1010e76ec9b33197dbcdffae7d857 *inst/tinytest/test_sql_quoting.R
9fac14a50c095ed909ecfbdbe071473b *inst/tinytest/test_type_mappings.R
76698681ce5f342043c8988fe1286ce0 *inst/tinytest/test_variantkey_regionkey.R
aebdc20333123b451a44ccb298e965c2 *man/Rduckhts.Rd
0507a4b1978e727e4cd5db8d95133780 *man/detect_complex_types.Rd
bc31abd3ef999ab108605c8727ed4fea *man/duckdb_type_mappings.Rd
8a77a5b9eeb51888c89595ebd3579116 *man/duckhts_bootstrap.Rd
1ebceb0750806e08b66127207aa706c4 *man/duckhts_build.Rd
b89b18b7a8b4660bd6c860283bed7528 *man/duckhts_load.Rd
43434466a718e96dfcc502a20adaf6bf *man/extract_array_element.Rd
52bd69aa6b83fc4d4f5b9cd254624e4d *man/extract_map_data.Rd
f450ddcf2d25d52abae1bef5877b0c7b *man/normalize_tabix_types.Rd
f905a6cb815b1b2a5cfa45bcad2c7681 *man/rduckhts_bam.Rd
e0439fe016e539cc0a69c1d89f1e08a0 *man/rduckhts_bam_bed_coverage.Rd
0f8b51f056e773dcc4f3ee98d53a3409 *man/rduckhts_bam_bin_counts.Rd
1af5804f74154a7074d6232f08b0b679 *man/rduckhts_bam_convert_parquet.Rd
1e09c44b9e1f111d0980e0e73ff62351 *man/rduckhts_bam_index.Rd
58aa2689db65576bebcda198926d1504 *man/rduckhts_bam_multi.Rd
ef485231bb71926f7dccef97ad87967e *man/rduckhts_bcf.Rd
500c52d82830a2721eb99f2579c48d1b *man/rduckhts_bcf_convert_parquet.Rd
eb14599a804d4a700524bc5d49ff937c *man/rduckhts_bcf_index.Rd
eef841fc5e53de782f2d8247d5cb82b8 *man/rduckhts_bcf_multi.Rd
f237834430757279c9063ac7c6254ed4 *man/rduckhts_bcf_samples.Rd
7f1bf96113d910744f158bb8016689d7 *man/rduckhts_bcftools_norm.Rd
26f10c5db37006af86d403b2dbe97af8 *man/rduckhts_bed.Rd
3a282319f8773838b7532854e4614d35 *man/rduckhts_bed_multi.Rd
14cd2f5d4c8c12f9cf2ece0f9be86e72 *man/rduckhts_bgunzip.Rd
3ff606836c2d509839d9030b61f380c2 *man/rduckhts_bgzip.Rd
b6206e7c5d85e230114cc24a9934a162 *man/rduckhts_bigwig.Rd
35cec0b7387827c3b229bc589238b321 *man/rduckhts_connect.Rd
9fc18ffee46e71b3654eb0c0efb0030e *man/rduckhts_detect_quality_encoding.Rd
87a5d309e85b20233f35db4b7be5d699 *man/rduckhts_fasta.Rd
13122b4ea7111563d2975944cc83bcb3 *man/rduckhts_fasta_index.Rd
b3029a0aa1648e08ca432b2d80fe5abf *man/rduckhts_fasta_multi.Rd
4c8218b20cd57e6ba65d0129ecd5bcc5 *man/rduckhts_fasta_nuc.Rd
3124a238e71c98433d38e2e630bba975 *man/rduckhts_fastq.Rd
2098bc5b3f4a0c3cfab5c44947b3531d *man/rduckhts_fastq_multi.Rd
f59b2f81d1ab3a7487533cfb27e8bfbf *man/rduckhts_functions.Rd
16dbdbcabae058ed4362a6e3ec98dc73 *man/rduckhts_geno.Rd
bc5fd132fe1044f1e98fe22fad3d7d37 *man/rduckhts_gff.Rd
ffc6d15134df5fe663e214d28b659c79 *man/rduckhts_gff_convert_parquet.Rd
16e1f7f83a01e8f60cd9ebe5e8ea37d1 *man/rduckhts_gff_multi.Rd
c5114dc9983c8d816a7ea294b5724e98 *man/rduckhts_gtf.Rd
f8e3ad1549ea3e414617e0dd52ce1ec1 *man/rduckhts_gtf_multi.Rd
1de431058640c89dfc49ff51f73fd48a *man/rduckhts_haplotypes.Rd
602008943eaceb011055b75fc4b5bdc4 *man/rduckhts_hts_header.Rd
0c1120170d947b204f719d486d718fcd *man/rduckhts_hts_index.Rd
519d9f3cc0deb539eb37902d374b6084 *man/rduckhts_hts_index_raw.Rd
e6c09c0fc3e456364854e27d0c1372e5 *man/rduckhts_hts_index_spans.Rd
ab40a137ee0609235fd376d658534ab5 *man/rduckhts_htslib_config.Rd
23e6003da9fc51a2599d6703dd3f2052 *man/rduckhts_htslib_info.Rd
8a190521d600dbd98c0e721ff6c5bd6d *man/rduckhts_htslib_version.Rd
3759c1e44d41d9c66bc30c206762d07e *man/rduckhts_liftover.Rd
37674f3432c4334014c1348a31fea5a6 *man/rduckhts_load.Rd
7eca75526f1fde5408dca18bed01c4ec *man/rduckhts_mosdepth.Rd
f6f0adc3dd8b2e0b21ef86f348e5629e *man/rduckhts_munge.Rd
3e0bfc028e1bcd0398826ea316fc4fd0 *man/rduckhts_pileup.Rd
405e1ec2cc8e2d561d2189ce9937fb3c *man/rduckhts_samtools_idxstats.Rd
070ee41c319535b92f7dfcadff6dba5f *man/rduckhts_score.Rd
6ee2cba0919f8d657abee44ad5c1b70f *man/rduckhts_simd_backend.Rd
40599f770bc5637cbfdad901a96b8d73 *man/rduckhts_somalier_bam_counts.Rd
40615977ec26b12fd0cb38cc4b5962dc *man/rduckhts_somalier_charr.Rd
d059ec508aca5b674b17786ccbc7df89 *man/rduckhts_somalier_import_sites.Rd
ea0a59cc0ee0340f9ecafc10909b62a5 *man/rduckhts_somalier_matched_contamination.Rd
a00053d04a944f4615487edc56066e41 *man/rduckhts_somalier_relatedness.Rd
c48979579f861ec8fb39cd2e75436cce *man/rduckhts_somalier_sketches.Rd
948089ffdc8b114900169fb638db5cfa *man/rduckhts_somalier_vcf_counts.Rd
dfac79290a99407a78f06831f7e70ebe *man/rduckhts_tabix.Rd
db26048ee42b7d7045188a88d7aadb8d *man/rduckhts_tabix_convert_parquet.Rd
e568c7f3700aa44b3b17926fcd5034ac *man/rduckhts_tabix_index.Rd
538cbcf3b5107d32611a8a8857c8233e *man/rduckhts_tabix_multi.Rd
973a348eabc48c0ea677f11e92c3892d *man/setup_hts_env.Rd
3be6aca444464389ba4fcad1537546cd *src/init.c
8225d9854c4af712a3387320ec03f576 *tests/tinytest.R
fc8937093518adc220fccb37b9afc8cc *tools/append_extension_metadata.R
1935f55fda1a03bbc28da05a07089645 *tools/bootstrap.R
1ad5f2685c0effe01981fc11f28ea35c *tools/write_htslib_config.R
