ec8832b26be3f531a0b385f90dd9a2a7 *DESCRIPTION
f164b6f5be40c13af0441ad90ab07d58 *NAMESPACE
b10f9536c3a0aff8001fb2d2f474b875 *R/AllClasses.R
a4a4ce22e8db829b8131020f7168f903 *R/AllGenerics.R
e33257a622093fd5ade34b82276adcb8 *R/Genotypes-class.R
2745fb0938da3b4ce906b979bd0c2d63 *R/TVTBparam-class.R
406ec0a579c860b31bb3a862cf58871f *R/VcfFilterRules-class.R
124469e1952c086fe62882944b2540b6 *R/addCountGenos-methods.R
8a4b6294fb8664ce12fbd58494726acf *R/addFrequencies-methods.R
4e245dca479041ca7d67a97cb74dccfe *R/addOverallFrequencies-methods.R
11f5a42b71783527c179b3369ac45009 *R/addPhenoLevelFrequencies-methods.R
7ac09909456943985adaafb1d842445f *R/autodetectGenotypes.R
cd9a7a836830b81dc2679136c480a875 *R/countGenos-methods.R
4a1291df701236cb32174cdce97e9241 *R/dropInfo.R
cd84dc06cd1ffa687fabb3002411c664 *R/pairsInfo.R
7e5b24c139f980334a8b81a165c33d09 *R/parseCSQToGRanges.R
0adf79f894b7bc7c9c81586c789e2eb2 *R/plotInfo.R
ef6bd913f75e14d57f1cdd0a7fa2f94e *R/readVcf-methods.R
533def4606f5da979d29d599d8e09866 *R/show-methods.R
3be7fa8335c261706d74a9590c578cbe *R/tSVE.R
cb3cec533a2d883b377c524c32f58b3d *R/utils.R
8c7d0ac99f661b4b575b49779477fdda *R/variantsInSamples-methods.R
6878e679943f8b50685edef88b7b7c01 *R/vepInPhenoLevel-methods.R
dc916f8a819ba4df760994d348b9b9f8 *README.md
c85029c7f3e1a5df851dd4e8e0c59e7d *build/partial.rdb
730279c413d925fe37c5dbe92f3a6e9d *build/vignette.rds
8476762fd57e43c7283078efe67e986b *inst/NEWS.Rd
d41d8cd98f00b204e9800998ecf8427e *inst/badexamples/chr3.dummy1.vcf.gz
d41d8cd98f00b204e9800998ecf8427e *inst/badexamples/chr3.dummy2.vcf.gz
5b0f30686757c18cb029271b5322527c *inst/badexamples/noCSQ.vcf.gz
44679bd9ebec5c3c6dea58a93815eee2 *inst/badexamples/noCSQ.vcf.gz.tbi
dcb30b431e5b2565538df9bead78296f *inst/badexamples/pheno_NoOverlap.txt
cadad58b331969fe7614e25624fb2ffb *inst/badexamples/pheno_OnlyColnames.txt
0eb827652a5c272e1c82002f1c972018 *inst/badexamples/pheno_OnlyRownames.txt
b766fb37cd46660bf7678a1dfc82a816 *inst/badexamples/pheno_PartialOverlap.txt
434393df63cbdf47efeba580d87c1ec6 *inst/doc/Introduction.R
0794376fc76a9479b2ea4f62ddcfe024 *inst/doc/Introduction.Rmd
a86645be81b07cb463be358547f003e5 *inst/doc/Introduction.html
46e033b16b6ad1eba051fef5b488d5c9 *inst/doc/VcfFilterRules.R
e14d17be931442dba05232d69b1a8a88 *inst/doc/VcfFilterRules.Rmd
35d3c66b5260145d211329cc127c2840 *inst/doc/VcfFilterRules.html
89617a62a98df53ed6a1822287b05086 *inst/doc/tSVE.R
794d5490edbc97322ab6503f500ae2f0 *inst/doc/tSVE.Rmd
3536624cc0adbb666396d557eeba6bd1 *inst/doc/tSVE.html
e2ae0781be33fcdcf64a16c4902a3529 *inst/extdata/ADH1B.bed
0297d833122b9e937ac5bac6fc1e8391 *inst/extdata/SLC24A5.bed
68d238be91746b4a0b197fff7e0e1708 *inst/extdata/chr15.phase3_integrated.vcf.gz
ab51707d2f2b4ef75d59bf727454f76e *inst/extdata/chr15.phase3_integrated.vcf.gz.tbi
c80e6e882004afc1b6664e1a69af35f9 *inst/extdata/chr4.phase3_integrated.vcf.gz
f3f6ed783433c976963b2d737066c38d *inst/extdata/chr4.phase3_integrated.vcf.gz.tbi
17da673e05b6ece5183fe8d903c410ab *inst/extdata/chr4.phase3_integrated.vcf_summary.html
d20e5913bd41e98112f9a9c4dd21e874 *inst/extdata/integrated_samples.txt
0f48b8622a7b6386c8d13cf1c3c10086 *inst/extdata/moderate.vcf
5473affe9dbbf2298b41d5a56eb28957 *inst/extdata/moderate.vcf.gz
aae87e48b5a99030d5591acb41639664 *inst/extdata/moderate.vcf.gz.tbi
70c610a2a5027153836047e934cc6532 *inst/extdata/moderate_pheno.txt
c80c31aabe5cd2034ff276e0af7a328b *inst/misc/1kgenomes_ADH1B_VEP.sh
da89b69a2063cc0ce48d02d50d182847 *inst/misc/1kgenomes_SLC24A5_VEP.sh
a6ded0aa2af6357feb6339390fddd875 *inst/misc/motivations_rules.rds
ffdbaba93a0885bd345c04abc2160c55 *inst/sandbox/SKAT.R
0193322c7f312574f024c17c369b8b8f *inst/sandbox/densityVep-methods.R
7df395fe933d153586a4d21417e6d7e8 *inst/sandbox/densityVep-methods.Rd
633d48ffb9ec329631f9e9cac748d8fa *inst/sandbox/tabulateVep-methods.R
6197f32f2e8a6e871b0a8f1b3c013a8b *inst/sandbox/tabulateVep-methods.Rd
4363aff836003ba9b74eec91ab003a86 *inst/sandbox/test_densityVep-methods.R
57511a05ff2815c4455dd7cc2359e5b9 *inst/sandbox/test_tabulateVep-methods.R
47e23bdf88b95e6dff5b49787733cc26 *inst/shinyApp/doc/EnsDbFilter.Rd
bb577d3431380b9e2a5d11081c010124 *inst/shinyApp/doc/chr2file.Rd
ce77cc39b76217c5eb0803ce45ad1dda *inst/shinyApp/doc/getEdb.Rd
50e533431b4a0cff0f350e02cc07f853 *inst/shinyApp/ensembldbFunctions.R
c665cc1eceec94f2dd03e0d1ced1c0d1 *inst/shinyApp/fileParseFunctions.R
5491e28a4b02f0ec28a301a6bcae8a69 *inst/shinyApp/global.R
fd13ff151f683e91f6bcbfc2918e1fc4 *inst/shinyApp/grangesParseFunctions.R
71ca7fa041c21ddc67866225db52921f *inst/shinyApp/rds/parallel.rds
d9bd1b9069fbc67664fcb52c5be2dd27 *inst/shinyApp/regions2vcf.R
0eb3b9e0ac56569d4996af4096adcd88 *inst/shinyApp/server.R
4edec11bf37949efd9d697649d750a65 *inst/shinyApp/serverRoutines.R
1f256ddb976d65f3b2669ca68a2f3c25 *inst/shinyApp/ui.R
117b75d216c68cc08b351abe9c0f179b *inst/shinyApp/www/bootstrap.css
dd46109b59587b4ec6827021d9a6f9d9 *man/Genotypes-class.Rd
fbce538c786e27434a6f883c516974af *man/TVTB-package.Rd
71695ec97264849e6efcf848f3bbd15a *man/TVTBParam-class.Rd
f764d6da08de3e4c607164b1a6e795aa *man/VcfBasicRules-class.Rd
3c71fc17e3bd5ce58b92f4fb3368463a *man/VcfFilterRules-class.Rd
e329708ec078cc478a5d313c1a56aed8 *man/addCountGenos-methods.Rd
465e876b1ca39f1dac1f488b23a7913e *man/addFrequencies-methods.Rd
9d97011abc5ecd5fac60c782667f4108 *man/addOverallFrequencies-methods.Rd
0c5e10ea035e321b274d60cff96634e0 *man/addPhenoLevelFrequencies-methods.Rd
20e162789ecf4a284ccc1d5b572efa1c *man/autodetectGenotypes.Rd
f8729996d86210ebebbbaecf2655f4a0 *man/countGenos-methods.Rd
8e7e20298412c8f4c27ec216a1df63bb *man/dropInfo-methods.Rd
94ac3cfdf025dae719d6831fdf3e6628 *man/figures/logo.png
f48bd7a4be7267f1e37c7fab6d6c8065 *man/pairsInfo-methods.Rd
03581f8cff454987585d1aa64b11de18 *man/parseCSQToGRanges.Rd
f3de9abf021e5b948d5784639c277f74 *man/plotInfo-methods.Rd
53320047e59b01b3d7cb2f246fb06523 *man/readVcf-methods.Rd
547e12b9d7eeb2d15e8389831fcd8634 *man/tSVE.Rd
d06cef678967f3c921c13e850528191c *man/variantsInSamples-methods.Rd
3c0f71932706afb682a4d917aed1d2f9 *man/vepInPhenoLevel-methods.Rd
6482a5c7989c65c49ee4156a86849aac *tests/testthat.R
b13ca1ca8885582cb48ab0d42195c3fb *tests/testthat/test_Genotypes-class.R
de5dc16976dbf5bea92d2c1643d21d6c *tests/testthat/test_TVTBparam-class.R
df86195c5c6a006e6d5e94f70294e5ee *tests/testthat/test_VcfFilterRules-class.R
059d4132748299bd97c4f700c92272e5 *tests/testthat/test_addCountGenos-methods.R
4630d3cac3d78e4e12ccde9324fe7cd7 *tests/testthat/test_addFrequencies-methods.R
2e37be94bd7e4e40431730c2d1a0407c *tests/testthat/test_addOverallFrequencies-methods.R
0122789fc54a89aa77c793d954674885 *tests/testthat/test_addPhenoLevelFrequencies-methods.R
49dacbf70ea4d9a073f426bf4cd43329 *tests/testthat/test_autodetectGenotypes-methods.R
204fb8cc232ade664502ae534ccec27c *tests/testthat/test_countGenos-methods.R
c104b54f268e29d87b464e0b258642a6 *tests/testthat/test_dropInfo.R
0f7feb1270f3b462056138403bb60e98 *tests/testthat/test_pairsInfo-methods.R
12f1c42f875284bd3a95759dd365b138 *tests/testthat/test_plotInfo-methods.R
bccd1043c2558b6dba5e6ca3d9375d33 *tests/testthat/test_readVcf-methods.R
e6dacc33bf7837957727aa52ad22969a *tests/testthat/test_variantsInSamples-methods.R
dcbfb224016939a1a639a0de9849f01b *tests/testthat/test_vepInPhenoLevel-methods.R
0794376fc76a9479b2ea4f62ddcfe024 *vignettes/Introduction.Rmd
40fcbc8b34335c22cd12d5a339ebba9b *vignettes/TVTB.bib
e14d17be931442dba05232d69b1a8a88 *vignettes/VcfFilterRules.Rmd
794d5490edbc97322ab6503f500ae2f0 *vignettes/tSVE.Rmd
