f44f7285f1c2defa804f0cde4c51a738 *DESCRIPTION
129c57b7a0c7443437eac8065dc3a9c1 *NAMESPACE
0cf1f2721406ae874dc221ea069b17dc *R/ZZZ_whopgenome.R
2bec69cce5e5ec056cc85349c0787a5d *R/bgzf.R
275cf4e268943ebc9eeb3496c44e72af *R/fai.R
6c32b457080daf122fd34a56b6ffb075 *R/file.R
f94f0e3a679d015303d7b4e6f0ea3903 *R/filter.R
aa92782edbef3d64b28801df4cc5d103 *R/misc.R
05f27a74c42f59d7adc7f486568df8a1 *R/read_simple.R
45dfa975c05a5498749ca8a10fde4dd2 *R/regions.R
1cd1c1b9627352fd0e46dab932ad4300 *R/samples.R
926607595e72dc9046c3ea8445d1ba66 *R/tabix.R
cf580ce699e56cfac0f02773c358085e *R/x_eg_db.R
928d1f109fda6060680df4572fa106b1 *R/x_go.R
9bb3ef51e392d0cf4aee60d2b4dbe846 *R/x_pedigree.R
740d4bbfc8f1693ba56f1bfe94cb804e *R/x_ucsc.R
290d7b00b8b9924f468b693e3133b9db *inst/CITATION
f1ee62347d9ec008bc135b6199159bbb *inst/COPYRIGHTS
939644972262ea7ac169966dec22e125 *inst/extdata/ex.fasta
b8846c39b7e347828ed8e4c876e62e4e *inst/extdata/ex.fasta.fai
d9cd372b0e28054cfdc87a55bbbaff89 *inst/extdata/ex.gff3
6ab0846b215900e4cb1bfa4ffc55ca9d *inst/extdata/ex.gff3.gz
de4197c04735837d67fbb02836845446 *inst/extdata/ex.gff3.gz.tbi
57c87e36819809e14cf92a69df3bc42b *inst/extdata/ex.vcf
1a07a3e90023908f72af7c84937ca3ab *inst/extdata/ex.vcf.gz
e6a514bbc163a717cf77c930483976d5 *inst/extdata/ex.vcf.gz.tbi
a01a6dc9d5d28b51d1a615b1c8347f76 *man/VCF_read_snp_diplo_bial_int_altpresence.Rd
4aaa35a0594ee4a1546eaf64b4c91b89 *man/VCF_snpmat_diplo_bial_geno_filtered.Rd
93f5000dcfb8b6510648efc878a9f20a *man/WhopPkg-package.Rd
3ed32b1523513b5b78c27e3eb434864f *man/bgzf_compress.Rd
d68bdae16483cc02d9c2085dfc141601 *man/fai_build.Rd
0349581eb967e745e5a40d568d9fa41c *man/fai_close.Rd
9208981255883890e20ea7270abe360d *man/fai_open.Rd
f85df0ed91a4ef1232748fb33498d2dc *man/fai_query3.Rd
11bbfad9856ebc22dcc9bb5c7efe0550 *man/fai_query5.Rd
ebb56f196e8c5611289b6006f60e719f *man/fai_reopen.Rd
235831696886f9c61e89f66c1ede7489 *man/tabix_build.Rd
03776a21a6ae0e7941ea4c63cfd21d96 *man/tabix_close.Rd
a90165f0044e84ae493f6225dde0bc69 *man/tabix_getregion.Rd
f4ce471c07750a67ebbf9412be682ab8 *man/tabix_open.Rd
7c4fd1d6e84928a91c2990c1ebadb9ad *man/tabix_read.Rd
ecccd52e909d0c558b12b6e5a4e360c5 *man/tabix_reopen.Rd
4e37bd186c40192c440fcbbcdc26ccd1 *man/tabix_restartregion.Rd
d099abeab10501b491a0f5f3bfecc15b *man/tabix_setregion.Rd
391331ee811c345c84ff44eecc5fd7fb *man/vcf_addfilter.Rd
0b5e08c6bbc008951c3ba9073ea7040b *man/vcf_buildindex.Rd
10906aac091a9e70f3ecc67e0efff4c2 *man/vcf_clearfilters.Rd
fa8bd17af989119ba5ccfc0580c8731d *man/vcf_close.Rd
ea0008afca568006f881f5ca8f1bdb45 *man/vcf_countSNPs.Rd
660388ff4e1aa53151a2baf3b08b7a6e *man/vcf_describefilters.Rd
203b2c32cc845390df0946f4c8ba6dd4 *man/vcf_getChrom.Rd
2bf0c48e53fe97a01572cf18da7f8142 *man/vcf_getcontignames.Rd
82749ab897642d03130b01f63172fb69 *man/vcf_getfieldnames.Rd
abdf5ec39ee8066d9ac0216778f95550 *man/vcf_getheaderline.Rd
833f97ad18fe1403af13a612dd9015f1 *man/vcf_getnumcontigs.Rd
3d60934d05487af0525fe83ce6c98fd9 *man/vcf_getregion.Rd
8f886e83c8076cbe14076d7fc0a2e6ba *man/vcf_isINDEL.Rd
b5c0c9e7b43911cbfc186826dd5d2889 *man/vcf_isSNP.Rd
4091819c9e9d50b7daf180f562aa309d *man/vcf_open.Rd
eca9babe0fb0ab5fea9eba9346677220 *man/vcf_parseNextSNP.Rd
79e5aa98b3bde232aa90260d5fc28492 *man/vcf_readLineDF.Rd
3183c074dabc1ea582728852bea0649c *man/vcf_readLineRaw.Rd
41d0f9ea8f2e69c11eaaaea1d10fc1ee *man/vcf_readLineVec.Rd
8138a6950dda5b2ddd81218bec2159ea *man/vcf_reopen.Rd
f14bb41db5d67bb60079b074021535aa *man/vcf_restartregion.Rd
5c7397cc07a07f70e89a0034292a3a62 *man/vcf_rule.disable.Rd
b8e21e1e563ddadc1ffcbc343f3d630e *man/vcf_rule.setaction.Rd
adfe6de2ed0c362f6d1e0d6f92977cec *man/vcf_rule.setcolumn.Rd
cb8a987bb063b01c05535762977e625a *man/vcf_rule.setcomparison.Rd
5c3c5f3ea66772f13e27ab04047214c2 *man/vcf_rule.setfield.Rd
d03342c0e0c46adfe5b2c0aca92a5d56 *man/vcf_rule.setrefvalues.Rd
4eb57e486d53491ca4e93fa75b8822ea *man/vcf_selectsamples.Rd
5c722b63a6e4075c39d746fac829c04e *man/vcf_setregion.Rd
4598bd4fa786600c19672503a80d2fd4 *man/vcf_valid.Rd
ed61cfaf118f27cb3af096a316de871a *man/whop.eg.Organism.Rd
a81e74966e1a8eff10dfc185676c271d *man/whop.eg.abbrevForOrganism.Rd
05a78c2d3416e3fa3386e1bccca23a52 *man/whop.eg.chromosome.Rd
a88e3824f74cf4d5b61acfc38cbe7ecc *man/whop.eg.eg_RevLookup.Rd
a0ab1eff402b87f3197d45ab58abed78 *man/whop.eg.eg_lookup.Rd
7497fefbc82c4ca3e4ff09fc5f54ab4e *man/whop.eg.eg_lookupAll.Rd
b1cdce3d462e65702527441249266023 *man/whop.eg.eg_lookupSingle.Rd
eb73fbcc9167423cba18a29486e88b69 *man/whop.eg.enzyme.Rd
6d33ce85fb3317d2e23a745660ec9b85 *man/whop.eg.fromAccnum.Rd
902385a7ae895b548ba6f1c972f3760b *man/whop.eg.fromAlias.Rd
2c1e500dadc8e9d485c497f93ad3dc7b *man/whop.eg.fromEnsembl.Rd
8b647d53a3098a944e3ff28741581fb2 *man/whop.eg.fromEnsemblProt.Rd
c36a887eb095777dfda186cd7c7822c7 *man/whop.eg.fromEnsemblTrans.Rd
abffa69ab7b7276ca72f58bd351a1490 *man/whop.eg.fromEnzyme.Rd
fb0a71cc5862e6e428c91d72e1f95ec7 *man/whop.eg.fromGO.Rd
badd7f9c746a5040634c608119861a19 *man/whop.eg.fromGO2AllEgs.Rd
880466acc13c154adef05a077906b4b2 *man/whop.eg.fromOmim.Rd
0a6aae4e57b830e68138b341d5974d50 *man/whop.eg.fromPath.Rd
4f69efef68f8b8d05ea723ed0913b68e *man/whop.eg.fromPmid.Rd
09ebadeabc1bc14ce288d8df20cb392c *man/whop.eg.fromRefseq.Rd
dd66d2293cd9333003fb0252e4598726 *man/whop.eg.fromUnigene.Rd
d49e7e37222a6e385124b5405bbdc52b *man/whop.eg.fromUniprot.Rd
f79c9d824b3781f5dbc88265a8e8276e *man/whop.eg.genename.Rd
df1d05dbd59939a07abfa4f1c1286db3 *man/whop.eg.goIds.Rd
2a31dfdd8f8f94aab8ae936d3c51a578 *man/whop.eg.installdb.Rd
25d39d7a8b52b873b52798bae91605d3 *man/whop.eg.keggpathways.Rd
2725b09e0f745804d52b912b6d067115 *man/whop.eg.load_orgdb.Rd
da40d391d6ad75a951cc62a2f885dec2 *man/whop.eg.orgdb_loaded.Rd
6d43910b30956bdbdb6f562b59747230 *man/whop.eg.region.Rd
e7eb78f88d5851ca54c31e6ffe433b85 *man/whop.eg.selectOrganism.Rd
15b49df12bb9257f1e9ac5aac8a8b02b *man/whop.eg.toAccnum.Rd
b8b04cfcdfaee2799f5f699f65825bf3 *man/whop.eg.toAlias.Rd
aa0222c0b66ffdad762353dd0f17bb13 *man/whop.eg.toEnsembl.Rd
a4c17346aa0d51eab67049e2f490c86a *man/whop.eg.toEnsemblProt.Rd
92fd2bc565cb536095bf0eac342f5c86 *man/whop.eg.toEnsemblTrans.Rd
29d9f60dec2f08a88e18ac3e6bd09433 *man/whop.eg.toEnzyme.Rd
f9bf701ce385c74a34a6f43cbd8c064a *man/whop.eg.toGO.Rd
6ab7d44e365a1c81063633699ae7bf59 *man/whop.eg.toOmim.Rd
d5893ada6c195b27492c1f4786d24e93 *man/whop.eg.toPath.Rd
02cb3c07a2c27064fdeab4dc16ed15c5 *man/whop.eg.toPmid.Rd
0adb6e7912feac466f913a2e7e362468 *man/whop.eg.toRefseq.Rd
a0332d2a91ff4e0433be329b89e77c44 *man/whop.eg.toUnigene.Rd
62345466c8cbc75480f8b1fbf0600c96 *man/whop.eg.toUniprot.Rd
78a2cbc74acb9fe773eb2f1b4fdfe5dd *man/whop.go.all_genes_for_term.Rd
8c0da1444954ed1268a2d430899b5269 *man/whop.go.connect.Rd
ba4bce00bc2a64c43b58f43ef0bca431 *man/whop.go.goid_like.Rd
5b3684a5f3660ddd9a31d8b4914b7a7d *man/whop.go.is_obsolete_byid.Rd
3c39b687179323f761d2c1ddcf4b1ef5 *man/whop.go.is_obsolete_byname.Rd
0347d96002633dd0ed2a351779737be2 *man/whop.go.load.Rd
f56f2d22cce948f007388fa768c21a0f *man/whop.go.match.Rd
02e66e06636848d3027dcce75bc5c30b *man/whop.go.term_ancestors.Rd
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0b1310ae0951238586a4cef80c8f9774 *man/whop.go.term_children.Rd
9c1c17986fe9565f7d32755348ceef37 *man/whop.go.term_synonyms.Rd
acbe44b6530896c769b5060f51f5aaac *man/whop.go.terms_match.Rd
28d290320d4a78858025191f59a35fd5 *man/whop.kegg.pathway_url.Rd
ab949178ea10cda73b060651e34cfe9a *man/whop.ped.daughtersOf.Rd
a5fdd15cc3fe46c994513e1839f117f1 *man/whop.ped.entriesOf.Rd
5b988fdbe538999a81077b6e97d729e0 *man/whop.ped.familyOf.Rd
99409af5d38824b354041d26264cac3b *man/whop.ped.fathers.Rd
74c52d40fe5200c2a7183f57f3797ee4 *man/whop.ped.females.Rd
74d9e6fef9a20eba4cc5ccfcab653494 *man/whop.ped.fromPop.Rd
9273ca2da89f2a80f97b76f9a7062a89 *man/whop.ped.load.Rd
35d089ade30ed88990d364fec73324c9 *man/whop.ped.males.Rd
5e2bef1454eabb98f523d5de48580202 *man/whop.ped.mothers.Rd
8360b2a49fcf230ee5653b1ab3d12f31 *man/whop.ped.names.Rd
bff00b0fca948669aa4a1dac6d0fb030 *man/whop.ped.parentsOf.Rd
762f90967373c8a116316608b230abba *man/whop.ped.save.Rd
f7c2090a51a99b7c359d12afa685f8ff *man/whop.ped.siblingsOf.Rd
eecbc369746d7cbb5b0b503ebffee848 *man/whop.ped.sonsOf.Rd
38e113062050290f187dde59d068c7fa *man/whop.ucsc.geneInfo.Rd
a4670f0c09e4cb3bb8afa3a26ac33ce4 *man/whop.ucsc.geneInfoSimilar.Rd
f712de0d5395ee1a41955d138b9eba68 *man/whop.ucsc.genesForRegion.Rd
51619930e4261cee0fde3874de6bbfd3 *man/whop.ucsc.query.Rd
550716014388311129fba260deceb280 *src/Makevars
e00ba3e284a28eda4338ad093c07a315 *src/Makevars.win
e2053958a8c2ce7545c49d7e2cb70fc7 *src/dummy.cc
73baebef6d6ffc576fd8be184c579943 *src/dynstorage.h
165e481f623640f03c2606a0672a4b52 *src/faidx_ifc.cpp
baedc03716cbe8bbc0b48b08f47ef0a0 *src/functor_common.h
96377e62a16a8973858c28fb39482ad1 *src/rdnapp_Fasta.h
c3d18915149c25486178566f2737bd24 *src/rdnapp_MAF.h
4d8adde4109b2d910c8622cc5b60e85f *src/rdnapp_MEGA.h
1cb146e566d242d448a5f7e6a786b426 *src/rdnapp_Phylip.h
2ab18dfe85fe313d7563c6df002eb2b8 *src/readdnapp.cpp
3933f133f9b23f42c7306c9c65e4ec64 *src/t_Rifc.cpp
78e8d7ad3af5f76cd9067af7d6b01730 *src/t_info.cpp
9072618f5d7774536a8070296b1fd23b *src/t_main.cpp
ec31dd8104e1cdec37e22c15918d1450 *src/t_read.cpp
0a6444fc691b108ca7e97c4ec5678529 *src/t_region.cpp
aba13a3883d7d117af33a6d8fe8c1ed1 *src/tabix/bam_endian.h
4c9f98ff85ba3ef45e346691d48770b0 *src/tabix/bedidx.c
0e6602a7ef27a78e2b9fa9db4218e6ad *src/tabix/bgzf.c
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25584486e62842ae19131540b328d124 *src/tabix/faidx.c
439b311de50e95d286bca25693f27433 *src/tabix/faidx.h
7e27fad20c220d7eccb32c42ed5160f3 *src/tabix/index.c
48cd8fc534ffa1468ad3a66fcf280712 *src/tabix/khash.h
62f3cce227f35a1da6a051bbd6273b10 *src/tabix/knetfile.c
1c7a7983205b621e3cde353ca2f75e34 *src/tabix/knetfile.h
169aafcef82265f00bb7f2d644d4d6e1 *src/tabix/kseq.h
26d4b4b49e983b0c601887bc1fa7f386 *src/tabix/ksort.h
d54a71ce0dcd277bfca2965d029e4318 *src/tabix/kstring.c
0eac32480c79f6ad7ffc60066a14a09f *src/tabix/kstring.h
4ec80c92be731add34942e19f7dc1aad *src/tabix/razf.c
ee59537b0051846e9ac4d12f4c8927f3 *src/tabix/razf.h
7a797578851ec2fc61850811ed6790bf *src/tabix/tabix.h
ba5d5ae1dd2a1e9ae874a72f3da3aabe *src/w_codemat.cpp
0022e41aa2ccbb7544043fe9840d57e9 *src/w_common.h
cfb15f92aebec8c978870a6ad674d9d2 *src/w_dataframe.cpp
aa6851157aa58ec7ba9379296308f3ad *src/w_filtering.cpp
01b836d306a846389576353dbddd8f27 *src/w_main.cpp
2565bac7064df3d05c27a0fd4316e0d4 *src/w_read.cpp
c16ce7cc56e08911b147eb7ce2951c19 *src/w_region.cpp
9a599f493ba38fc30c13edb8aefe4be7 *src/w_rsupport.cpp
f88ebdca893de2c6df220dca9cc23630 *src/w_rsupport.h
6f25c258ef7578067cf0971196156cc5 *src/w_samples.cpp
7187ad87bdae66175a46356c5e07fe58 *src/w_snpmat_diplo.cpp
ae9b68691c99471c6f0d8a7cdd49081a *src/w_snpmat_fnc.cpp
3c841c1b559e70f452e5c50b56ac9799 *src/w_snpmat_int.cpp
c81b4b204a2ceb050de6296864768c22 *src/w_snpmat_str.cpp
0c24290ac9009a6fd80cd60de5c0c740 *src/w_tabix.h
a27e776949a024a37a1fcdce453dcaa3 *src/w_tabix_internal.h
2d3282dbe1a7f4cf1bd7bf5e60701328 *src/w_tools.cpp
d3c8fdcde4f93521bb88c233067b20ba *src/w_tools.h
8ac0ac06075c8412ac590daa39530a9b *src/w_vcf.cpp
54b47440cd4fce6396b538ae383f4d76 *src/w_vcf.h
