25e3132ace17cc98e73ae7c6551b770b *CITATION
2f8c814ecce33f5108582a1ea034ea07 *DESCRIPTION
82ae600b31e9f2f317d684f996ba22a6 *INDEX
914c1e3c71381b2af5d63939a42d2df0 *Meta/Rd.rds
ac99bc4c2614e0689dfb3afcf2150d57 *Meta/data.rds
f539449704202ddab63b9aa093f5ecbd *Meta/hsearch.rds
7c730665c7635dfde06ede8fef031b0b *Meta/links.rds
7210944a1d52fadafc5c6a918baeb4a5 *Meta/nsInfo.rds
1b2f9a89d0a9f31f183e5497ce3e6a27 *Meta/package.rds
fa16d3c3573622c4d1bd379e5adfa454 *Meta/vignette.rds
d2372cf2adeb1a0af6f38fac94901bba *NAMESPACE
afb7d63f4faebf953eeffd69094d8dec *NEWS
ebf0fc819595d631b8bf280c4b049940 *R/PureCN
2ec14fac12cbe491b352de26837255d3 *R/PureCN.rdb
d89a17d77b04044206ccb99c01499521 *R/PureCN.rdx
96f375c72d93d3e64ec0adeccf99f194 *data/centromeres.rda
792877683e694c56be687d61bc3e9408 *data/purecn.example.output.rda
29eead12803424eaacc08af2c3548b0f *doc/PureCN.R
3b5a606b477d62e1dc6f2ff072379e96 *doc/PureCN.Rnw
67b1028c51cf654720d14d4eb5a3d29c *doc/PureCN.pdf
7e7a58bae581249e42fb4c65fea13082 *doc/index.html
1e74224128b7a80b70979a00e62ebda7 *extdata/Coverage.R
d2fa9e4874c67d84a2c847f13d99229c *extdata/NormalDB.R
f5f59a2edb074b6e9ac6dabbc977f719 *extdata/PureCN.R
3e55f3cbacf0ade2c2a406f1ad3f51b7 *extdata/downloadCentromeres.R
7df758adaaf5b6d487ac22e4dba6c31e *extdata/ex1.bam
1888862b9d22ddb8ca663eabc41c78f0 *extdata/ex1.bam.bai
3cde10782966a832047779d3d1294e46 *extdata/ex1_intervals.txt
ff600751c668406cf7c32e7362ce3899 *extdata/ex2_intervals.txt
fbe2d2fffd0dc64303686f11b5817883 *extdata/ex2_reference.fa
3b1ed770f9de08a67d73e260b6bc97af *extdata/example_cosmic.vcf.gz
cb4501c1bb40ad0b7af797f7a756d74e *extdata/example_cosmic.vcf.gz.tbi
04ed9c18809a807d427a5867ff56533c *extdata/example_gc.gene.file.txt
f623c0280730c0c7278c29a2178422d2 *extdata/example_normal.txt
19b01a2a4f9b6a233741ab61d4297f19 *extdata/example_normal2.txt
7b5c8d29d3b53aa13d419a520359070a *extdata/example_seg.txt
336879c80ccc07b30d3e44dce84b904a *extdata/example_tumor.txt
5d73baed8fb0ff5dad0a4bb2d55ef1a4 *extdata/example_vcf.vcf
efc17f1901c0090230be09f42bd24366 *extdata/test_coverage_overlapping_intervals.txt
d17112f4f0b3fed5630d29180a1518b8 *help/AnIndex
e6d982b6cede32543c4b72dc84459cdd *help/PureCN.rdb
fa6938e7e90c6a4eafc7fa01ff68c549 *help/PureCN.rdx
88fd74d82af67aeb7f7bcd55b9cb09a7 *help/aliases.rds
63d9f259c95725423482222b6e3a726e *help/paths.rds
a36c0429c1895f52feba1862e15ae7ad *html/00Index.html
b6763e6916890c631fdc3f2643803b1a *html/R.css
35fa7df41ea3b3ce3629e3fd4353cb82 *unitTests/test_autoCurateResults.R
c84963bf3235ff7ca648e93d71610999 *unitTests/test_bootstrapResults.R
4a89771e20a1337ec34e34aaf9e8d90c *unitTests/test_calculateBamCoverageByInterval.R
0b741691e8611a09cc93c3d016a252c2 *unitTests/test_calculateGCContentByInterval.R
c4791dfd46f11b76c25ca2a6e35f9b45 *unitTests/test_calculatePowerDetectSomatic.R
e38772a6799ff2e2f8698ad5df99336a *unitTests/test_callAlterations.R
75a750a8ae0e764ba6fdce39651598b1 *unitTests/test_callAlterationsFromSegmentation.R
96f73d8dd402b97c1b15804603af0894 *unitTests/test_callLOH.R
5c8831170af82016174a9c8f073bf314 *unitTests/test_correctCoverageBias.R
a2302e3d77988709f3b39149d88ef5c1 *unitTests/test_createCurationFile.R
262a6fb1f7bbc047e505c7671ba5a746 *unitTests/test_createNormalDatabase.R
fcb80697d549218c97e3112561a02348 *unitTests/test_createSNPBlacklist.R
a9ac8996631ec379d6dcc55d01071fb9 *unitTests/test_filterVcf.R
fe0ef6aa55b09ff1ad76cb70c8a48798 *unitTests/test_findFocal.R
c17eb035f1f155170bc09f6d99a94899 *unitTests/test_getDiploid.R
b0079704638deddfb0ec3c5eb0f003c5 *unitTests/test_getSexFromCoverage.R
407dbd31c98162fa72ef67d9404532a6 *unitTests/test_getSexFromVcf.R
560839c724d8f6dfd23d5997704f804b *unitTests/test_poolCoverage.R
3b35e5f019122ef09e088f41f7821474 *unitTests/test_predictSomatic.R
4f0a0be1ec06c14caca1ca56481b022e *unitTests/test_readCoverageGatk.R
a788eb090fa86bea6b7ff250767837ed *unitTests/test_runAbsoluteCN.R
bee684ec27428f798f090870afa47fa2 *unitTests/test_setMappingBiasVcf.R
96ca0d2e680ba59f973f402337e74286 *unitTests/test_setPriorVcf.R
