19c52a475d83f9ad7ae92b0140f938d9 *CITATION
0185c19f66645775a95fbe1523c45d87 *DESCRIPTION
3676782fd1acf778c036ae9d33b1790a *INDEX
db0ddd4ed13b9692a1b33d1b8d9e828d *Meta/Rd.rds
a4081712be3649fee57cb72b810cc0f9 *Meta/features.rds
24271a4de69309fbc8a1d813e2ed47ea *Meta/hsearch.rds
72a8ec78dc7e1f70af9e3e3d0092805b *Meta/links.rds
6fb5acc0d6b2f9f9df1882d2aa939f68 *Meta/nsInfo.rds
1678208c8b9b789157e0c82f04e71454 *Meta/package.rds
adc644a378a75a632a569a0c8f8c373f *Meta/vignette.rds
a27604b1edc60a03af2328a5c12eed2c *NAMESPACE
b0997683071d4e4dc59299ecd0daf868 *NEWS
ebf0fc819595d631b8bf280c4b049940 *R/decompTumor2Sig
04c7c5c3019c9c52eaf2df7727bebb77 *R/decompTumor2Sig.rdb
8cec2532c1a73e0c502bc8fa95991f19 *R/decompTumor2Sig.rdx
223b1ee3b9e39a30c7a1dd73f97c554a *doc/decompTumor2Sig.R
fa58fbad4881cb4642566583ed681d99 *doc/decompTumor2Sig.Rmd
7a3968b4ac5d97332b126bcea94337f0 *doc/decompTumor2Sig.html
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
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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
1536fc34c7646771e45602d6a2ddf007 *extdata/Nik-Zainal_PMID_22608084-pmsignature-sigall.Rdata
51fbeeaabacec3643f6b8c7fbca70aad *help/AnIndex
e54d42298842e98c8e9b09d9fdcda0df *help/aliases.rds
d6f103abdd951d265f757d09b66a1275 *help/decompTumor2Sig.rdb
36abe7f37bfff5ff936bc38974c4332d *help/decompTumor2Sig.rdx
e3f108b3ec3d2a197ec344d284383ddd *help/paths.rds
bc21130ec3b194d9f3b01ef5f5508096 *html/00Index.html
e700c80427cde13337c43030e697be3c *html/QPforSig.html
b6763e6916890c631fdc3f2643803b1a *html/R.css
0164eeec12ddab071a9ea7810823a6e1 *html/addBestSignatureToSubset.html
840e1f1ada116967d733a3fa450a9128 *html/buildGenomesFromMutationData.html
af8610af16def5670e40d66985f23666 *html/buildSortedAlexandrovSignaturePatternList.html
fd1c1b81f95590d6078c55ce132b7ec8 *html/composeGenomesFromExposures.html
232f45d32bb756c711808fa78395f107 *html/computeExplainedVariance.html
8f9d41056accabe762a0a05da60a0799 *html/computeFrobeniusNorm.html
d0161ad295a4d74e8ec0d29b290dd08e *html/computeRSS.html
ca190f88145e7dd0f79ee8c281d89e98 *html/convAlx2Shi.html
946c869a908f666b716c32d1e55ba26b *html/convertAlexandrov2Shiraishi.html
2e0687dcdf8e6f8e8323977b904dee0e *html/convertGenomesFromVRanges.html
e20882cb7c5df19f4be8afc1c0b3f952 *html/decompTumor2Sig-package.html
05cd18ec18926b4efe5be957d5bfc6fc *html/decomposeTumorGenomes.html
87b99f08fdc36e60c961741bb3b2a3b5 *html/determineSignatureDistances.html
10489f7b6729020fad6becf43ffe17ae *html/determineTypeNumBasesAndTrDir.html
2cc823968509cfa77dc9508dd7f9ac08 *html/downgradeShiraishiSignatures.html
4729e8c092ca288d73f1227c66df6d6e *html/evaluateDecompositionQuality.html
92acafacd229f384a925d99bac04702a *html/getBestDecomp4Ksignatures.html
6a405f0c8564f87ba76ba35aac4a0bd6 *html/getCountData.html
3557a6932b0e0405febd9a4c820d8912 *html/getFeatVectList.html
9e29f63922d7a900267378bc666f0967 *html/getGenomesFromMutFeatData.html
5334edd79df025a1e61e77caa027b87d *html/getNumFlankingBases.html
97fc6c73d86b2549bcb1c57e463bc528 *html/getNumSignatures.html
db25b3f4b7bd7760fec084ff62748693 *html/getSampleList.html
9cc75954d82e1ef633b942c99219e8e3 *html/getSigFeatDist.html
ed7aa2e6a890e2a8ff3b367a0e7d21d2 *html/getSigFromEstParam.html
fc233001d4561cef014c31f87d3f7606 *html/getSigType.html
08fc2eb284699c660160c7485beb61b5 *html/getSignaturesFromEstParam.html
9e3242afa1456f351962cb845bbdffa0 *html/haveTrDir.html
55b4f7d844be5fa5bc3f224be6da5cfb *html/is.probability.data.frame.html
5df7a9e1629c9758f690c2b3cad9d5ec *html/is.probability.data.frame.list.html
413566958dedd664e6aa7350312409b8 *html/is.probability.matrix.html
a6699239d8fe2e4802809ce9f6ac1d07 *html/is.probability.matrix.list.html
b4302f9737f45d7cd4aad731056a256c *html/is.probability.object.html
86abbc0394c60cb257bcdc9c5fa4a7c5 *html/is.probability.vector.html
74609adf4dedecb5dd92fd384c485e9c *html/is.probability.vector.list.html
59a9f63ad6e7f43294f530befde36115 *html/isAlexandrovSet.html
81752cd859b5f2b2c7f8a2fa1e7daba4 *html/isBackGround.html
e32b423c58b9ab58dd9a95257aab531b *html/isEstParamObject.html
8a9af2777d8272afc03e5f8f2a546330 *html/isExposureSet.html
0b0e02608494f38d505da4adc32c59e0 *html/isMutFeatDataObject.html
624ca13fcf474584f6f3dc2093266335 *html/isShiraishiSet.html
f741844a8b44a7275280ccc5177e0a0b *html/isSignatureSet.html
4c1e2a11729f631a9a89032b1f7d083f *html/mapSignatureSets.html
ac9f96d45305a2a080144b983bf2c1fc *html/plotAlexandrovModel.html
b66696938b7071b32a7feae6f30c3a05 *html/plotDecomposedContribution.html
585f27cc45030100b436200991a28d1f *html/plotExplainedVariance.html
17dd8b4a846c7f48010cab5b9f02776d *html/plotMutationDistribution.html
6bdbaf344d6d2e7499c34668e56af7ac *html/plotShiraishiModel.html
c33d3026aee157c85f24c8ee58b72633 *html/processMultipleSigSets.html
a9399991e14725b19e2c2240c5fd6c96 *html/readAlexandrovSignatures.html
8a69abc0f8dfff07833480f615ab7d8a *html/readGenomesFromMPF.html
5b0f5ea87382523fee33dbc612cf78c7 *html/readGenomesFromVCF.html
aa25e44724e19d71a289aa61128a0d6d *html/readShiraishiSignatures.html
dbb3351827f1639eeccf7a3375426ccb *html/roundIntegerSum.html
203faf584cdd163d79bc7765957dd5d4 *html/sameSignatureFormat.html
2f4322d230a076f55a59349f2815f062 *html/setNames4ShiraishiTable.html
d6ca40b4ba0d48bc8fac26362e05838f *html/setNumFlankingBases.html
65317849689b593c0c3dbb340b86887e *html/setSigFeatDist.html
fd8e78c4ac5f21a5f26c38ba81dc4707 *html/setSigType.html
093e0a53e4c464ad6eb0a4e9238b537c *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
