786ba007912e5a9ddce7ebd442e8ce8c *DESCRIPTION
7f86a1c1e8e5bb5533088de51ae0e6cd *LICENSE
bd330bf923d3f42ead1accdacec6f536 *NAMESPACE
a376cdf9a08494c495c5633bcaa15829 *NEWS.md
c511231c97c6d8d9990e6e15f8659bde *R/CNVScopeserver.R
e014011970fef04acf99d2692a4d745a *R/GRanges_to_underscored_pos.R
90fdf0c988c9a981e5e7bf21ee6a8278 *R/averageMatrixEdges.R
50c0e5b13ec003576c76b3d2320f28d9 *R/calcCNVKernelProbDist.R
6d8dcd8f12ff254f3a54b5d596b61af3 *R/calcVecLMs.R
19be0e07341e2f5cb912248e3cfc1a28 *R/createChromosomalMatrixSet.R
c9791822261d722c6a99aa644b06c49f *R/divisors.R
3144698aa6a727251d4a4d6dce93e804 *R/downsample_genomic_matrix.R
69482a301c3730b85d65201f1db8f7f0 *R/extractNegLogPval.R
9d3b28763626faf40f9ace0f84acacb0 *R/formSampleMatrixFromRawGDCData.R
494d358523fa3b00054a6e4e0acaf779 *R/freadGDCfile.R
fda4d1ee81ec16825022a686ac799803 *R/getAnnotationMatrix.R
fc7355eb3666c418229c90a80df8b652 *R/getAsymmetricBlockIndices.R
09f233d29277fa23497bc37e5ad8c0d8 *R/getBlockAverageMatrixFromBreakpoints.R
9226ec7f0c459de8b0d3f6138e75636a *R/getGlobalRescalingStats.R
5e7c952f34932d754bb95361402c9fd2 *R/getInterchromosomalInteractivePlot.R
56653f464470fd9c47890e2b4b6115af *R/importBreakpointBed.R
c1a1fbd43ce79bf271c8cbcc3250dfe3 *R/mathead.R
a382ed970526d0ce9890db957024ef4b *R/nbl_result_matrix_sign_small.R
fe0b9fdae3cfa1a1ab7fc47c01780c06 *R/postProcessLinRegMatrix.R
be82bb9a9466ec40cce7deb733311766 *R/rebinGenomicInteractions.R
aec716c9edb7ffe554bbb11a88feaa7a *R/runCNVScopeLocal.R
64f3f743c6c1cc2b5be46601e2eba9b2 *R/runCNVScopeShiny.R
d50f053283c768e282010a4ca89eaa98 *R/signedRescale.R
1a901aa07356168f6816aa612eaff74c *R/underscored_pos_to_GRanges.R
319ad0b74502cee3063eed275e90958a *R/writeAsymmetricMeltedMatrixToDisk.R
8f3b36f107dd2b6b1071e468fd5f8f6c *R/writeMeltedChromosomalMatrixToDisk.R
809433d6c4a143c1f5246b58e953aca9 *build/vignette.rds
6edd728bbea3ff250c291276d830c3d8 *data/nbl_result_matrix_sign_small.rda
02cf0389d5dbb115622fd1d666d115a1 *inst/doc/additonal_examples.R
a80b30db4640e3dbd8775c0c96618376 *inst/doc/additonal_examples.Rmd
4f6b939838656b299a85cc9ea3abf689 *inst/doc/additonal_examples.html
ae830fcebc94655db53adaa060e825e3 *inst/doc/create_input_matrix.R
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0336a3644bbf781ff88696ae7c733ff6 *inst/doc/create_input_matrix.html
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d1ef7a01d4c8db93170c307bc3e349e5 *inst/doc/create_output_matrix.Rmd
0e6d9ef08138ddcd403ebf28b73985c8 *inst/doc/create_output_matrix.html
5d2cc47c62824c3957b76403550e09e8 *inst/doc/power_analysis.R
520f58389135c4d0f677c9c98ebe489b *inst/doc/power_analysis.Rmd
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7ed74d8cb4dd818d596514e25eca53bb *inst/extdata/censushg19.rds
16c0a5136d2cea276e998cb29cfce2e6 *inst/extdata/ensembl_gene_tx_table_prot.rda
c18d24695cfa463fb5a9b867793b9c33 *inst/extdata/grch37.rda
aeda73c6819b4732a2a66290d06dcbdb *inst/extdata/nbl_result_matrix_sign_small.rda
a9e478254424c4b4a051f8d1730f909c *inst/extdata/nbl_result_matrix_small.rds
8ed4a29f37ba2ccb81c3ca433ad84707 *inst/extdata/sample_breakpoints.bed
9eefde13d3be21a8b8bd2277c3f03a79 *inst/extdata/sample_breakpoints_chr1.bed
578ea4e683719300902c33e4fc9dfbfb *inst/extdata/somaticCnvSegmentsDiploidBeta_TARGET-30-PANRVJ_NormalVsPrimary.tsv
0909d662d67e5531ae3c8a7a1c76f8e0 *man/CNVScopeserver.Rd
9fdcd13c36b5d039c6a7fbedbf9068c8 *man/GRanges_to_underscored_pos.Rd
de139c8f97264e7236722357c9bc1485 *man/averageMatrixEdges.Rd
cd32e1c5734df1b215d70d299dfc6f77 *man/calcCNVKernelProbDist.Rd
aa072ff1059c23cf6915adfa953d9cc5 *man/calcVecLMs.Rd
f986c97ef4942dd2c7d20a0bb7e0699d *man/createChromosomalMatrixSet.Rd
b06961b229cd53edd38e5bf47e9215fa *man/divisors.Rd
bec2822c536570160ebf6986ba05951b *man/downsample_genomic_matrix.Rd
70d8b7f94323d6376a522db98b30cf32 *man/extractNegLogPval.Rd
5822a12686756dd004de1e7e957cb31a *man/formSampleMatrixFromRawGDCData.Rd
74c91f29ef9c3a4aa18711862fad4a27 *man/freadGDCfile.Rd
0f877168a13b8cdb8597f80faf377b2c *man/getAnnotationMatrix.Rd
521d54e90b3fbff73b5f1ca1c92e8193 *man/getAsymmetricBlockIndices.Rd
bf9505ffa8f232065a936726ce293ec0 *man/getBlockAverageMatrixFromBreakpoints.Rd
18cb8fa8ae978b793a86427fd027b509 *man/getGlobalRescalingStats.Rd
21c9cac4cbe5d968174c94f166949e62 *man/getInterchromosomalInteractivePlot.Rd
0ce06d8fbb8c9525239195b8022d392d *man/importBreakpointBed.Rd
ce548c6787142e1b106d9a53d3a8045b *man/mathead.Rd
236610841edb071e9c8f64c6472204c6 *man/nbl_result_matrix_sign_small.Rd
aa3e16fad9f2c6fcbf6d6be9c72782f3 *man/postProcessLinRegMatrix.Rd
314b1b4699659c0803a7c5475dec8daa *man/rebinGenomicInteractions.Rd
0f88ae74f5eb7b14e8913ec1d185b094 *man/runCNVScopeLocal.Rd
8f088cd49e1f593f8d859d6debfab20f *man/runCNVScopeShiny.Rd
69bb5e71f9b070853610851fbdebdc26 *man/signedRescale.Rd
33d70f2baa5946cb55e3284bd1280906 *man/underscored_pos_to_GRanges.Rd
325f2027a80a9d50b9bf3eae71f13b10 *man/writeAsymmetricMeltedChromosomalMatrixToDisk.Rd
0abdbc895b7b3f155b51de869762382b *man/writeMeltedChromosomalMatrixToDisk.Rd
0b2f0b040a7118a40a3d43242bd6cc91 *vignettes/NBL_custom_sample_matched_input_matrix_1e5binsize_parallel.rds
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6f71055316888eb8249e4c7add00c840 *vignettes/NBL_custom_sample_matched_input_matrix_2.5e5binsize_parallel.rds
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a86a4be27a8492c709a2512a593bc33a *vignettes/NBL_sample_matched_input_matrix.rds
a80b30db4640e3dbd8775c0c96618376 *vignettes/additonal_examples.Rmd
6ffea24c2b405da9b9086a12835773b8 *vignettes/aml_sample_matched_input_matrix.rds
d8f112e96a2d03495ef11f3cd2580317 *vignettes/blca_sample_matched_input_matrix.rds
7e0f90ee65364ae4533e044acba5c615 *vignettes/chr11_1e5_nbl.jpg
bc64ba0e9653eb5a47e678ec9b0b6f9f *vignettes/chr11_1e6_nbl.jpg
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c8ee016b9eebe6e0db38ec199bf8a9da *vignettes/chr11_1e8_nbl.jpg
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eab695593d348fc34449881f6855fe73 *vignettes/chr17_contour_blca.png
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520f58389135c4d0f677c9c98ebe489b *vignettes/power_analysis.Rmd
b97bee97e3dad113d64edd0942f2d043 *vignettes/skcm_sample_matched_input_matrix.rds
