4a5c9fea268d40b15b8b0f181b462080 *DESCRIPTION
d16d8dcdc66cefbde5b7b5d001f7217d *LICENSE
631368dcaf38261a0cc2e80f0a2aee34 *NAMESPACE
04b1783100802de49cc082921dd81669 *NEWS.md
d006e202447f7406921dd1bb5c1689e5 *R/CNVScopeserver.R
9deb2f82f164d97c8be810de327ccf36 *R/GRanges_to_underscored_pos.R
90fdf0c988c9a981e5e7bf21ee6a8278 *R/averageMatrixEdges.R
99e0a15770c1f6fd4aabc427cd632eab *R/calcCNVKernelProbDist.R
d8e0e5aa58a8e7102cb6b542310e595c *R/calcVecLMs.R
6d735d3a9ee10f24eac50a8a25335268 *R/createChromosomalMatrixSet.R
269a64aae4f90648662fd57768836712 *R/downsample_genomic_matrix.R
69482a301c3730b85d65201f1db8f7f0 *R/extractNegLogPval.R
8a8e4147d27bb478b14956500d2f4d91 *R/formSampleMatrixFromRawGDCData.R
b99e8168a3b0e46d5654a1e22a3a3d34 *R/freadGDCfile.R
afb02f4505c33c1a4e9cfb6de9820ebf *R/getAnnotationMatrix.R
873a46938e083a7bddded10b0ddb53a4 *R/getAsymmetricBlockIndices.R
0bebb8b293492d474e06e74740871e1f *R/getBlockAverageMatrixFromBreakpoints.R
9226ec7f0c459de8b0d3f6138e75636a *R/getGlobalRescalingStats.R
7877e71538883cde055a002bd55c70ac *R/getInterchromosomalInteractivePlot.R
1c10bcd506de81114f93bde43a09beab *R/importBreakpointBed.R
c1a1fbd43ce79bf271c8cbcc3250dfe3 *R/mathead.R
a382ed970526d0ce9890db957024ef4b *R/nbl_result_matrix_sign_small.R
0d49fcd927473cc6447749937025f8db *R/postProcessLinRegMatrix.R
ea866871b7e8e87622194bba66502944 *R/rebinGenomicInteractions.R
aec716c9edb7ffe554bbb11a88feaa7a *R/runCNVScopeLocal.R
c956c0114e313f6d2149e1071e91a2f1 *R/runCNVScopeShiny.R
73f13e34fa2759548794a5c4e6cf8a63 *R/signedRescale.R
fd8253315e8ca27731ae50d87a2d159e *R/underscored_pos_to_GRanges.R
2396d47dbaca07f84a4f0150c55db63a *R/writeAsymmetricMeltedMatrixToDisk.R
50d8d219246176bc6a171eeb36ace151 *R/writeMeltedChromosomalMatrixToDisk.R
083ea3edc99ca243fe49be28a47401b1 *build/vignette.rds
aeda73c6819b4732a2a66290d06dcbdb *data/nbl_result_matrix_sign_small.rda
5802a93325379ea7b1f27ecbc49ffd60 *inst/doc/additonal_examples.R
5595e808a15346e0b5882a0094dae8e6 *inst/doc/additonal_examples.Rmd
ed0948e521ffc309ce8c132ae2488761 *inst/doc/additonal_examples.html
8093ec5d3c96010246bd399fb81c8054 *inst/doc/create_input_matrix.R
2df863485831abf1f9f026a6034365e3 *inst/doc/create_input_matrix.Rmd
7c2551b663a97606cddbe17aae31b7ae *inst/doc/create_input_matrix.html
a45c6d682d3e80a4f767169c1cf09b78 *inst/doc/create_output_matrix.R
fa96f3eba14856d0b91096de3455d226 *inst/doc/create_output_matrix.Rmd
92c758b7e5e3473c40a8a008ab34cf7b *inst/doc/create_output_matrix.html
17ddb30c088e9d0daf25f9b3c938f183 *inst/doc/power_analysis.R
cd38797a3117946b19e1a6b8841eadf5 *inst/doc/power_analysis.Rmd
c9d808a95104135ad4b4cc31de42805c *inst/doc/power_analysis.html
7ed74d8cb4dd818d596514e25eca53bb *inst/extdata/censushg19.rds
5a0219514df373ed430ebcfa20bb30ad *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
b0611beabe549f3e07f978db8b54763c *man/CNVScopeserver.Rd
2b7c88e2702e0272047c7f11a06e66c1 *man/GRanges_to_underscored_pos.Rd
c6824896922d461e3367c46369f096ec *man/averageMatrixEdges.Rd
f0b98c27ceda8c4ab29c078ae9764aa2 *man/calcCNVKernelProbDist.Rd
c85cd028d79e08488f2f74d6fd5b570e *man/calcVecLMs.Rd
1daa4a30fb6903eb2a148e64ee6077cc *man/createChromosomalMatrixSet.Rd
34e93c1e485990902658171362fd048b *man/downsample_genomic_matrix.Rd
ef6da51cc556af8110d778d0d7ccb6a8 *man/extractNegLogPval.Rd
23ce3396f1b2b51ae670bb5c673bda00 *man/formSampleMatrixFromRawGDCData.Rd
640b135f361b703434bf154a0f079b6f *man/freadGDCfile.Rd
f184d8f927471653648e5a338f39307d *man/getAnnotationMatrix.Rd
455bb785e201ad89bb950a015450faca *man/getAsymmetricBlockIndices.Rd
1f8e5b67914d4360e6fdf9476580b8d2 *man/getBlockAverageMatrixFromBreakpoints.Rd
d0b42a159b530b641bfad54cdb70317e *man/getGlobalRescalingStats.Rd
8cd19161a7c3aab13a826ecbf9b17db4 *man/getInterchromosomalInteractivePlot.Rd
0a996afe8fe724796da9bfeed63ffc1a *man/importBreakpointBed.Rd
ac5cc8d0d29885c918752ff926bad70e *man/mathead.Rd
08bdb9897b2f10083adfde111eaf9d63 *man/nbl_result_matrix_sign_small.Rd
89ec767531d5d32de286e5ddd1f84560 *man/postProcessLinRegMatrix.Rd
6fd5ea6bd7e7ec1407a657d09e81ac66 *man/rebinGenomicInteractions.Rd
6dd8e1ea32b2e07c47f539e9f282e089 *man/runCNVScopeLocal.Rd
d45fb38a99ff35cdfdd09cc058d592a1 *man/runCNVScopeShiny.Rd
7cf0d8b07e3f4f703a82999fa6e31d3c *man/signedRescale.Rd
380027832ca41ca8d1dfff6cba87f6d4 *man/underscored_pos_to_GRanges.Rd
22e3ca7417f17fe5cc5c1220fd7077bc *man/writeAsymmetricMeltedChromosomalMatrixToDisk.Rd
a44f2059427afffc5153384cdd808510 *man/writeMeltedChromosomalMatrixToDisk.Rd
3e9d1e1609f214066eeeaf96834a1965 *vignettes/NBL_data_files.png
c219e11db786238b9bb6d91f25f57a87 *vignettes/NBL_sample_matched_input_matrix.rds
5595e808a15346e0b5882a0094dae8e6 *vignettes/additonal_examples.Rmd
e6a4ba99492fe5c8afa102120a8249a7 *vignettes/aml_sample_matched_input_matrix.rds
a37f64db7c072fae260763ea2b0424ac *vignettes/blca_sample_matched_input_matrix.rds
eab695593d348fc34449881f6855fe73 *vignettes/chr17_contour_blca.png
bde3a6c9d20823d6b104472c3326efa6 *vignettes/chr17_corr_diff_blca.png
65ad41616a455f921625e4c3aa53e51d *vignettes/chr17_probdist_blca.png
2df863485831abf1f9f026a6034365e3 *vignettes/create_input_matrix.Rmd
fa96f3eba14856d0b91096de3455d226 *vignettes/create_output_matrix.Rmd
84824ab02509dc11717975fdc1a3b0e5 *vignettes/download_from_cart.png
341363c2e60976c908cd381ddd8b4271 *vignettes/interchromosomal_view.png
a9e478254424c4b4a051f8d1730f909c *vignettes/nbl_result_matrix_small.rds
1d176255f8cd79c42ff9bf48538201f8 *vignettes/nbl_slurm_object_test_zero_removed.rds
cd38797a3117946b19e1a6b8841eadf5 *vignettes/power_analysis.Rmd
55c803d38d4591a66b61591854c17594 *vignettes/skcm_sample_matched_input_matrix.rds
