076bd4ea5dc830a6acf8871256ea76e1 *DESCRIPTION
86d3f3a95c324c9479bd8986968f4327 *LICENSE
8f9527cc1173b045b6b7740d6a6b8d4e *NAMESPACE
c8cb1525db2765d6485720e5ffb7e7cb *NEWS.md
2b5e04c36e919cd08bd81484830e6e71 *R/buildCDS.R
873c80cf66a3622a5104e1d472633b93 *R/data.R
97e4a9bf0f1bc3fc9991f211e3a7ac6e *R/eachfunctions.R
e7922445b0eeede2394f1b6fcff92ecf *R/has_consistentSeqLevels.R
c85c159e8e69edea1c5eca53c9204735 *R/import.R
6c47d04f234936ec33fc7678a61ff6e3 *R/is_gtf.R
7396a895cd99df5c1781abc586832cfd *R/matchChromosomes.R
7fe3613ac9dedadf9e966e9c5f813e74 *R/matchGeneInfo.R
402da749030faa3a8285dbb06ba93425 *R/predictDomains.R
30f1fbb0d95189bc2e565be225ac87d0 *R/predictNMD.R
d8dd4bf20561512b8844a715051118ca *R/subsettranscripts.R
40f460ff8545b9acc955f85a5d2398a9 *R/trimTranscripts.R
1e3ca96d90b0249e3359b19797168607 *R/viewTranscripts.R
ff1bef635c53613c25ba0feaf16404a8 *README.md
933d5f9272664d605eee3632671ac76d *build/vignette.rds
b03ec7a13782f5491223ad9a7707fdc4 *data/chrom_matched_query_gtf.rda
647ebc9114b26e0db834b6bbecc91ad5 *data/domains.known.rda
3f8c14b58caf5c8196e02d9b782d0c72 *data/domains.out.rda
f03943374dd8e53f817f2c11f4ebf0ff *data/matched_query_gtf.rda
16935824f681d6ad0394bfe6c5bc5c71 *data/new_query_gtf.rda
57146b07e3b9032fa18861664d44dfca *data/query_cds.rda
bd576f5581b24713a9118e900f9dd7d7 *data/query_exons.rda
7341ba71990fcf938bcbb5231f3b5ca8 *data/query_gtf.rda
c1b19dd5301faff91b35e35307fe6d3e *data/ref_cds.rda
88586c0ada4c5e2ab3c19b50f1c89eaa *data/ref_exons.rda
239dd9d0f5805c6809e31b7dffd9b394 *data/ref_gtf.rda
7de4e930fb6df5ca7ec679f6bb4b7215 *inst/doc/factR.R
ce33b94c4a56b027ba270af3960b17dd *inst/doc/factR.Rmd
b12d27957161e0ea2f90e26f6bc3c256 *inst/doc/factR.html
a432a3c063c299e63650aca3bac0fa40 *inst/extdata/sc_merged_sample.gtf.gz
1e1494a54938b5ee100ff66c6f4d1627 *inst/scripts/ReadMe_extdata.md
7f85e8dc14ca5e2a444d6e1e4d67101e *inst/scripts/download_assemble_sc.sh
00ceaf42cbe03e2a01ad0d7131399e66 *inst/scripts/sc_fastq_curated.txt
cea34a85b5a4aa00aa00eb2fc2b2aca4 *man/buildCDS.Rd
448cc373f781ea31a8c2852d12fe8a28 *man/chrom_matched_query_gtf.Rd
3eb330738cff90def1604f41abcbd42e *man/domains.known.Rd
0ae590ce17e4293dd872839cc143dbfd *man/domains.out.Rd
f439b5675cf7097420d5648a40c31091 *man/figures/factR_workflow.png
3bd2e2475c1b3e1a11063450389e3287 *man/filtereach.Rd
38fd8262142ccf60b54f00923658a08e *man/has_consistentSeqlevels.Rd
da5401fe892f7df32d3f12339795c8a2 *man/importFASTA.Rd
3d904be7977ffec8f881ae11e7b98e1d *man/importGTF.Rd
b9982af09c70b29260b9460665b8ef11 *man/matchChromosomes.Rd
8e2b4184d07184e74f62a41e2b6e5d31 *man/matchGeneInfo.Rd
6bc2d46507a4020d01cd5bcdb85757ca *man/matched_query_gtf.Rd
ab75c69c330643aaa40a6a473e475e3e *man/mutateeach.Rd
7c6f7ad8b56cae699de76206bcd7d4d2 *man/new_query_gtf.Rd
bd5a08c014112a340e3e492dc6233c84 *man/predictDomains.Rd
fe69d08ff63cc347e3f420ec498c6d1e *man/predictNMD.Rd
b187781662f4e8ed9b382ca62ba58c56 *man/query_cds.Rd
5aa33960a3b3849271c762412f9ef2e9 *man/query_exons.Rd
9d30844f2b04e2c0ea2fc869dfffaeaa *man/query_gtf.Rd
f59f02e82bc9d38c5644b3eaeaeaef62 *man/ref_cds.Rd
44521ec87273a61bbcc48566e1d8e04c *man/ref_exons.Rd
9b12c76faa102fe4367521d243016b32 *man/ref_gtf.Rd
cef34715a00ea4fbeba52db479b0a03d *man/sorteach.Rd
1a121befe929c5c90aa0c06541dbb3e4 *man/subsetNewTranscripts.Rd
7c778d25603669cceda7b339fadaf8bd *man/trimTranscripts.Rd
7c889c3badcc48c119f43ce3dac98dc8 *man/viewTranscripts.Rd
7e5f52e015424024dc6f05a7967391d5 *tests/testthat.R
150ae4b77a6729cf6e1609e47043b43e *tests/testthat/test_buildCDS.R
6fc5551261df0cee28e0c7bba3883c28 *tests/testthat/test_each.R
005cd90ad1d00163c56ea5a12d56676e *tests/testthat/test_io.R
be826ad078a6a3980a6a82724e0563ab *tests/testthat/test_is_gtf.R
76d09e7d23dd4faa616204f20a7b877e *tests/testthat/test_matchings.R
c8f8d9795e2af4281161afec0e2e40dc *tests/testthat/test_predictDomains.R
57caa0a7bde6dad4eb43e2aeaa039e5b *tests/testthat/test_predictNMD.R
4c8bc718e2dbf84827304320e47fff65 *tests/testthat/test_resizeTranscripts.R
06632f3dc6a0490bbe40d79d99d34a2e *tests/testthat/test_subsettranscripts.R
ce33b94c4a56b027ba270af3960b17dd *vignettes/factR.Rmd
ed0c1a1c544e765f341591abf7054ab5 *vignettes/references.bib
