3a94e27b48ef91a096aca728e41e584d *CITATION
b66ccf9899d14c231fd12345c1aa7753 *DESCRIPTION
1b6d4b40a26d889ff6bfbf2639fefd5a *INDEX
28dad4492fcf2f517fc721fd2834f28b *LICENSE
4d605f9e5c72ecfef7961a56010ceddc *Meta/Rd.rds
9c6fc9444f1d52dca2f8e75b612d7e36 *Meta/features.rds
ef6b70a67539937d48ae9f7ede138ee1 *Meta/hsearch.rds
cb29f3020d8a82eef82ed8a8e3a14611 *Meta/links.rds
e2a68fa6fd3f2632778ec22c3c607f33 *Meta/nsInfo.rds
479b8f7cfedb64de7a4985d91d288915 *Meta/package.rds
de226078125e0f32d34a152737392f67 *Meta/vignette.rds
9d1596c4ecb74f6e82bad5919d578475 *NAMESPACE
d900df5910e39ac6946df7eb224fd086 *NEWS
d6c68f1fe41ced6e98a766a3757313da *R/MutationalPatterns
515fdc3e52d913de998faeec0d8a02df *R/MutationalPatterns.rdb
11f486a7978eb9bbb6d2463580cc77b6 *R/MutationalPatterns.rdx
0f8fe47060d48349e5af4011e894d7e6 *doc/Introduction_to_MutationalPatterns.R
9dff48b0622935bf7800cdbf7d7773e6 *doc/Introduction_to_MutationalPatterns.Rmd
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5d8fd097bd831a1f5d4d78b2fc69812e *doc/index.html
7c8f99f154f53b8a8318684ebc679756 *extdata/ReplicationDirectionRegions.bed
643092cb274fce36504f839500210821 *extdata/blood-AC.vcf
fc7938084ce8fbe9847d01bf118aa490 *extdata/blood-ACC55.vcf
150473517ba18e3aaf399c9b180c960b *extdata/blood-BCH.vcf
d6d71a1d57a8942bd8542068ad488c8e *extdata/callableloci-sample.bed
b49e7fa31aa68b0aee3c0ec7dd3ef042 *extdata/colon1-sample.vcf
a2bfb21690d86ad4e607cd119854f3bc *extdata/colon2-sample.vcf
95a608fddd72b1765036f927ad30e387 *extdata/colon3-sample.vcf
1a050f99f58a0afc3a17158fde0e5b42 *extdata/duplicate.vcf
2c705176f6bd12f64c1fd67328140944 *extdata/empty.vcf
4d5f87f30ee9816399fe2a13de456c6e *extdata/intestine1-sample.vcf
d15ed6a7324874597fa541b74b8e4fde *extdata/intestine2-sample.vcf
3d94d229781d592ff4596da5634adf9a *extdata/intestine3-sample.vcf
39f063623d16503183ee9dffee66e616 *extdata/liver1-sample.vcf
e78c1eb12ff28f83f76918c2f7357602 *extdata/liver2-sample.vcf
2a1f82ea11ac948eb739611bd45f8705 *extdata/liver3-sample.vcf
e793c1c5a782b4772fdf69da34222ef3 *extdata/signatures/SIGNAL_conversion_matrix.txt
a184291fa592ded29fb6afddc2ef988f *extdata/signatures/dbs_COSMIC_v3.1_reference.txt
f962bbf63297d6a6da44c464224d4f85 *extdata/signatures/dbs_COSMIC_v3.2_reference_GRCh37.txt
8c59a0a3adc0a8780aa87911b59c3f59 *extdata/signatures/dbs_COSMIC_v3.2_reference_GRCh38.txt
3c7bdead32cf4a245c0a2aa974f054d0 *extdata/signatures/dbs_COSMIC_v3.2_reference_mm10.txt
5e052965ee25f874cd1c9082ed37e694 *extdata/signatures/dbs_SIGNAL_exposure.txt
71fcffe1378db7d61ae8e23d1d670cbb *extdata/signatures/indel_COSMIC_v3.1_reference.txt
eec0300b238112055b8296d900790766 *extdata/signatures/indel_COSMIC_v3.2_reference_GRCh37.txt
9e868e8eb41b0d2545ed168d034ba9c9 *extdata/signatures/snv_COSMIC_v3.1_reference.txt
7aa849f8c84eb4c954caa1fa952c4f2c *extdata/signatures/snv_COSMIC_v3.2_reference_GRCh37.txt
3ad8e301d492818d50fe78cc7efd066d *extdata/signatures/snv_COSMIC_v3.2_reference_GRCh38.txt
3d1163b13da4633a8e89068f4ca5d28f *extdata/signatures/snv_COSMIC_v3.2_reference_mm10.txt
5ad31ce61e64b1ab1098f7d05130fc52 *extdata/signatures/snv_SIGNAL_exposure.txt
9ee9b09a6d6feb0fc153f30863ab9466 *extdata/signatures/snv_SIGNAL_reference.txt
fe868420f878f439498981e8e039ce10 *extdata/signatures/snv_SIGNAL_tissue.txt
fe9e67dbb125a7400885ec628cf9328a *extdata/signatures/snv_SPARSE_reference.txt
8048639b0d0fbc89dbee8b06dccbd560 *extdata/signatures/tsb_snv_COSMIC_v3.1_reference.txt
91477419453b74175246f0b75f3e5f08 *help/AnIndex
531ff6e5247827cecef91b2eef555e11 *help/MutationalPatterns.rdb
c4ec1d60df2023d75587070184af15d3 *help/MutationalPatterns.rdx
34eedb73a11d87c7b927e7d185f6ceb2 *help/aliases.rds
9c77fbf2fbb3f8f154135d46668d7c7f *help/paths.rds
9b44341093c45df5431eb89200d379f3 *html/00Index.html
3845aef6126cf18c45937f292f23508c *html/R.css
403c69dfa78265ce3243a98014517e43 *scripts/Format_signatures.R
d2d6c11b0390efcc8ce234fc87d4875e *scripts/create_example_dbs.R
6673fa4acea44331de0fec3bce32fec4 *scripts/create_example_indels.R
a45390662576f0de8ecc64eed8788ed0 *scripts/create_example_mbs.R
99ae1839a18e69d389a3733a6527e800 *scripts/create_example_regulatory_regions.R
763c2cbfd6e155fd1cb73544560f2712 *scripts/create_example_snvs.R
b8fdcf57371a5bf6fd32d9cdee1a48ff *scripts/create_example_vcfs.R
634298b7a9cc0d3b65dc57ae3b8c0c14 *states/CTCF_g_data.rds
d6b322652e615904701ef72e4c44459c *states/blood_dbs_counts.rds
b0af1dc752f767eee9fa22d15df1da8a *states/blood_grl.rds
d7d87ca79521e46264814bc1c5f67405 *states/blood_grl_dbs.rds
b580d3c41f9eec304b8c0680385d05f2 *states/blood_grl_dbs_context.rds
4b264259f59199ed5b6993496a428fcd *states/blood_grl_indel.rds
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0bd14b1729b8f32696e25d1146bbfa5a *states/blood_grl_mbs.rds
3cee41ad4624f1c06124978d8cb69115 *states/blood_indel_counts.rds
a7314df33e94bde3c554a171fc8f565d *states/blood_indels_counts_split_region.rds
a3293e4bce27e93f4a7bfb6e6939e67e *states/blood_indels_longmatrix_split_region.rds
ac729851b5f2fdc6ce558da753568541 *states/blood_mbs_counts.rds
184ec97c6480f951678512f6cabd1aed *states/blosum62.rds
59d7badd0449004616b73721a700c9ca *states/bootstrapped_snv_refit.rds
599e59e945f0339ccda1c0cbd25d71e0 *states/context_mismatches.rds
326d35826d103e3ab8f2caf6a05f4097 *states/dbs_refit.rds
7061ab2bf5880700c741b4a26e1a0361 *states/distr_data.rds
820a6629b78365b317fbdc845238cc8d *states/grl_split_region.rds
35b15ca4dcf5f924689fd2640ce908cc *states/indel_refit.rds
8413b2b27e0d685efa6359cd4c10a788 *states/lesion_segregation.rds
a7852b9d11241d49ab9abbe9040fd861 *states/mut_mat_data.rds
9d5ac4c45b8f597e8a8910cf8f7a08e1 *states/mut_mat_data_extended.rds
94bee7c42eb7688790dbeeb4506e3c7d *states/mut_mat_longregions.rds
a722830dde4d647868b52f92dc4f5208 *states/mut_mat_repli.rds
1724d53448820e24b0ed8a5702bba8f1 *states/mut_mat_s_data.rds
078f2c50a6ed1dfd7d8455549919173f *states/mut_mat_splitregions.rds
84527f56cc8efd5e749947aa2cb37bb4 *states/nmf_res_data.rds
ba6921b8d3702ccf19a234ed3d860ac3 *states/nmf_res_strand_data.rds
ed9e4d7ea30f09aaab6e675a954b0714 *states/promoter_flanking_g_data.rds
546ba8475a829565ac04648b6a9600a2 *states/promoter_g_data.rds
f0f6acfc617057ea0ea1a5026071a7b9 *states/read_vcfs_as_granges_output.rds
32153d317ebf2716b564915e2338fbe9 *states/regional_sims.rds
4722c5eeab118da611e41c53cd35e1f1 *states/regulatory_data.rds
5c2014ce303ad6959ba4a9a587102565 *states/repli_strand.rds
0751885efc7fd67e2095d98e6fbca8a3 *states/snv_refit.rds
dc473c15476f28e0bd4934e249a2030a *states/strict_best_snv_refit.rds
1cb70f76a2a43bd4c0f9b6414ee11690 *states/strict_snv_refit.rds
