Files in jamesdalg/CNVScope
A Versatile Toolkit for Copy Number Variation Relationship Data Analysis and Visualization

.Rbuildignore
.gitattributes
.gitignore
CNVScope.Rproj
DESCRIPTION
LICENSE
NAMESPACE
R/CNVScopeserver.R R/GRanges_to_underscored_pos.R R/averageMatrixEdges.R R/calcCNVKernelProbDist.R R/calcVecLMs.R R/createChromosomalMatrixSet.R R/downsample_genomic_matrix.R R/extractNegLogPval.R R/formSampleMatrixFromRawGDCData.R R/freadGDCfile.R R/getAnnotationMatrix.R R/getAsymmetricBlockIndices.R R/getBlockAverageMatrixFromBreakpoints.R R/getGlobalRescalingStats.R R/getInterchromosomalInteractivePlot.R R/importBreakpointBed.R R/mathead.R R/nbl_result_matrix_sign_small.R R/postProcessLinRegMatrix.R R/rebinGenomicInteractions.R R/runCNVScopeLocal.R R/runCNVScopeShiny.R R/signedRescale.R R/underscored_pos_to_GRanges.R R/writeAsymmetricMeltedMatrixToDisk.R R/writeMeltedChromosomalMatrixToDisk.R
data/nbl_result_matrix_sign_small.rda
docs/README.Rmd
docs/README.html
docs/README.md
docs/_config.yml
docs/cnvscope_tutorial.mp4
docs/control_panel_demo.gif
docs/index.html
docs/tp53_tert_walkthrough.gif
docs/zoomed_tp53_tert.gif
inst/extdata/ensembl_gene_tx_table_prot.rda
inst/extdata/grch37.rda
inst/extdata/nbl_result_matrix_sign_small.rda
inst/extdata/nbl_result_matrix_small.rds
inst/extdata/sample_breakpoints.bed
inst/extdata/sample_breakpoints_chr1.bed
inst/extdata/somaticCnvSegmentsDiploidBeta_TARGET-30-PANRVJ_NormalVsPrimary.tsv
man/CNVScopeserver.Rd man/GRanges_to_underscored_pos.Rd man/averageMatrixEdges.Rd man/calcCNVKernelProbDist.Rd man/calcVecLMs.Rd man/createChromosomalMatrixSet.Rd man/downsample_genomic_matrix.Rd man/extractNegLogPval.Rd man/formSampleMatrixFromRawGDCData.Rd man/freadGDCfile.Rd man/getAnnotationMatrix.Rd man/getAsymmetricBlockIndices.Rd man/getBlockAverageMatrixFromBreakpoints.Rd man/getGlobalRescalingStats.Rd man/getInterchromosomalInteractivePlot.Rd man/importBreakpointBed.Rd man/mathead.Rd man/nbl_result_matrix_sign_small.Rd man/postProcessLinRegMatrix.Rd man/rebinGenomicInteractions.Rd man/runCNVScopeLocal.Rd man/runCNVScopeShiny.Rd man/signedRescale.Rd man/underscored_pos_to_GRanges.Rd man/writeAsymmetricMeltedChromosomalMatrixToDisk.Rd man/writeMeltedChromosomalMatrixToDisk.Rd
vignettes/NBL_data_files.png
vignettes/NBL_sample_matched_input_matrix.rds
vignettes/create_input_matrix.Rmd vignettes/create_input_matrix_tcga_prad.Rmd vignettes/create_output_matrix.Rmd
vignettes/download_from_cart.png
vignettes/download_from_cart_prad.png
vignettes/interchromosomal_view.png
vignettes/nbl_result_matrix_small.rds
vignettes/nbl_slurm_object_test_zero_removed.rds
vignettes/prad_files.png
jamesdalg/CNVScope documentation built on June 15, 2019, 9:37 a.m.