770d52bdb5b9d73162c507d905ef1fe4 *CITATION
34dacdb847c949f005711e82fd345492 *DESCRIPTION
3676782fd1acf778c036ae9d33b1790a *INDEX
68f7f52b06e776b9e9d109158c7078a5 *Meta/Rd.rds
1d15b8cd6573641f81c4126b0438e9c2 *Meta/features.rds
2850611a4ae50078e66229197d5d3861 *Meta/hsearch.rds
7c57a4fe22480c86629c97a39771b654 *Meta/links.rds
f8d37ce4a6babac42599aa6aba2b04a2 *Meta/nsInfo.rds
f15dcefef3061d8b0b14bc546596855d *Meta/package.rds
f805d5f50293307266edffdf888e1d3d *Meta/vignette.rds
454c57e8b9ffb54838242bb0d0fecae5 *NAMESPACE
f282409ccfe1ed93f8b22e080de26dbb *NEWS
d6c68f1fe41ced6e98a766a3757313da *R/decompTumor2Sig
47629daa75cb6614c2f514c8ac0b445c *R/decompTumor2Sig.rdb
fc66127938e2d53725d8f463daa93834 *R/decompTumor2Sig.rdx
f74aa3e636551037392974bd6008f46c *doc/decompTumor2Sig.R
51121f69ebb60f2eaada8962343a3fa4 *doc/decompTumor2Sig.Rmd
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cad4860654dd42fb26ad75f33e77b74e *doc/index.html
71d5489dca9fd1d3e22149041f3cbcc4 *extdata/Alexandrov_PMID_23945592_435_tumors-pmsignature-15sig.Rdata
dcc8a08c0e2facbdc7d26ed3d2e2f8cf *extdata/Nik-Zainal_PMID_22608084-MPF.txt.gz
99882e3468120514bf5bcfa99e09a8ad *extdata/Nik-Zainal_PMID_22608084-VCF-convertedfromMPF.vcf.gz
c9dc27bb88c4c9d4ff00036ddb81612f *extdata/Nik-Zainal_PMID_22608084-genomes-Alexandrov_3bases.Rdata
ba1243de9778074a4bdc87df3ff9cb72 *extdata/Nik-Zainal_PMID_22608084-genomes-Shiraishi_5bases_trDir.Rdata
c480ff0e92617ec448e63f777069f090 *extdata/Nik-Zainal_PMID_22608084-pmsignature-G.Rdata
7c851f642f63a00f130030e809cedbba *extdata/Nik-Zainal_PMID_22608084-pmsignature-Param.Rdata
82e7fdbf5a07f0d177a15fbd6701a552 *extdata/Nik-Zainal_PMID_22608084-pmsignature-sig1.tsv
678103097909f0de0b36a18e4f49934c *extdata/Nik-Zainal_PMID_22608084-pmsignature-sig2.tsv
5f3777474c68d244c72de1c90b0a908c *extdata/Nik-Zainal_PMID_22608084-pmsignature-sig3.tsv
2efa22bf8e8537eef40782727527991e *extdata/Nik-Zainal_PMID_22608084-pmsignature-sig4.tsv
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51fbeeaabacec3643f6b8c7fbca70aad *help/AnIndex
6da5d3d8f37ea0cfae37517c776b8846 *help/aliases.rds
6661214025048186d6f60a8231a8c56a *help/decompTumor2Sig.rdb
fa02c71366b483bc73dfd98fcf006ebf *help/decompTumor2Sig.rdx
2e3f04c3c64feffe2d00b9c4f9563957 *help/paths.rds
409997069f8b311f89552479d7f5ab04 *html/00Index.html
1adace7db119f8c2f79fc8f78aab5812 *html/QPforSig.html
b6763e6916890c631fdc3f2643803b1a *html/R.css
dc7171e7a101176377776dcf041305aa *html/addBestSignatureToSubset.html
d0bc46aa3760af7f37c930db35653e9a *html/buildGenomesFromMutationData.html
bdddf609047a2f53fd715aba8c5ce25d *html/buildSortedAlexandrovSignaturePatternList.html
1079d637a5e73fc9f59add2ab7fb0d53 *html/composeGenomesFromExposures.html
7771fc11a5c803aee5c5a0b477ab8a6a *html/computeExplainedVariance.html
755518452d5b2ffca1e67f473c4ed30d *html/computeFrobeniusNorm.html
177e305ee96f02bebad8c5f8929930eb *html/computeRSS.html
61060ebc1990dbd8b19e23d2a17717de *html/convAlx2Shi.html
2dab45a57bbf854903bcdd57fc50f3a5 *html/convertAlexandrov2Shiraishi.html
a3d953ff689cefb70c8612458b3cc457 *html/convertGenomesFromVRanges.html
91901e8ce31fed02c3622ab935a9b853 *html/decompTumor2Sig-package.html
2653540a6b90612c46dd25bf2c72de57 *html/decomposeTumorGenomes.html
e9b981814e988964eb61839df37d941c *html/determineSignatureDistances.html
acbe824c264ad8f3abc030c462d1724b *html/determineTypeNumBasesAndTrDir.html
88c6546e13ed23b0aa6de2f155f06f9c *html/downgradeShiraishiSignatures.html
3c4591564b872adc8a99219ce56036df *html/evaluateDecompositionQuality.html
21c5a964e6e5dc49e240bdf13966c210 *html/getBestDecomp4Ksignatures.html
83fc52620d93b0470a15be888655f9d6 *html/getCountData.html
11662ef6e9bd6b014193d100124c946f *html/getFeatVectList.html
e87baccc5145bd9d9966fa060fc092cb *html/getGenomesFromMutFeatData.html
43999e7ab527c39cab914a7b53bbf3b7 *html/getNumFlankingBases.html
e49674309efb57cb3e83f50a67ae074c *html/getNumSignatures.html
36126d1e33b77eb6abe53d8dbf6c1b02 *html/getSampleList.html
5d9bbe25377760e04cd38ddb3e48a304 *html/getSigFeatDist.html
481b9e616972c45670ac8d3501a96d16 *html/getSigFromEstParam.html
1510edd508f6fd0afa4c44dc3af2ac7d *html/getSigType.html
6571aecc899198443b5f4a8969674650 *html/getSignaturesFromEstParam.html
17a8ee4aa1cd3c2a7c87cc2b3dd18d17 *html/haveTrDir.html
d9402f82e07a56953fb470e8eed1e9f7 *html/is.probability.data.frame.html
5902541fe0633ef2d3938f612d49e120 *html/is.probability.data.frame.list.html
51ed72871daa3751bbbf348d68850db3 *html/is.probability.matrix.html
0498ee3b82b484f7a6b118955cd5425f *html/is.probability.matrix.list.html
97859a4cd05829469bbad345c8c9f6a3 *html/is.probability.object.html
1661f6eae3284c980253e8f995b835f7 *html/is.probability.vector.html
a7b639d0688a09c697df72e8bfd44b18 *html/is.probability.vector.list.html
b59ffa1b5efaf71025bb00839e85ff8b *html/isAlexandrovSet.html
658b593eb158420c0ef0a961a5256c96 *html/isBackGround.html
5be171b96c03b6529a8976160be453a0 *html/isEstParamObject.html
4e76114d8fe7b6074d13d16296077194 *html/isExposureSet.html
444cfcfddd93709e06992c969c6c279a *html/isMutFeatDataObject.html
aaa91a61698057c065fe905b6f73ac04 *html/isShiraishiSet.html
3f20fc49322e667f6190aac529253cbc *html/isSignatureSet.html
bda9c957356746ac4cbb7a25551bb997 *html/mapSignatureSets.html
ff8a09779db9b512a4d809af8a9cb42b *html/plotAlexandrovModel.html
c5522397737e1308e4b690090bc137cc *html/plotDecomposedContribution.html
ab3b46fe4d7a823a733ef53b8d97c3e7 *html/plotExplainedVariance.html
ad21b484f352737fdee44e01366536c7 *html/plotMutationDistribution.html
d72bac7469845110b0e7dd04c1835bc4 *html/plotShiraishiModel.html
753b898848211d823be0914c19a792ca *html/processMultipleSigSets.html
301a6e746f3efedf6acde260faffd084 *html/readAlexandrovSignatures.html
6ca82e72d62e090ed199f4755693d50d *html/readGenomesFromMPF.html
18a32bab8011604e97a7fd09fbfb982b *html/readGenomesFromVCF.html
de93a70c02f28f851c947daf3840c745 *html/readShiraishiSignatures.html
2a8e449011ac4eea329720af73de6162 *html/roundIntegerSum.html
241ddbb3319ed7c6a8fc95d3b8a5b7e6 *html/sameSignatureFormat.html
0e54079b029092e8d2e89cc7cfa0fe92 *html/setNames4ShiraishiTable.html
16ca954b9abac625ee45a30ca21c54ed *html/setNumFlankingBases.html
dd6c7f9c41948fa4f3eea5c178e6866b *html/setSigFeatDist.html
fba820831ff88590875e7170e5dfc072 *html/setSigType.html
b066c3c6b5903dad46018334671ae887 *html/setTrDir.html
94d55d512a9ba36caa9b7df079bae19f *license/COPYING
9f94f627b12210584ac8cbd72cff5bb3 *script/Alexandrov_PMID_23945592_435_tumors-pmsignature-15sig.R
279cb1c1ae68ff451ca792280617cd04 *script/Alexandrov_PMID_23945592_435_tumors-pmsignature-15sig.sh
4b00a42bacf4cff0bced438e3ded178e *script/Nik-Zainal_PMID_22608084-MPF.txt.gz.sh
efc64eb7c925bdf906d0123fab898fa1 *script/Nik-Zainal_PMID_22608084-VCF-convertedfromMPF.vcf.gz.sh
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1603815dc5e22bf34583383bb25bf780 *script/Nik-Zainal_PMID_22608084-pmsignature.R
8fc6b096fe82526c694c664857864d23 *script/extractSpecColumns.pl
