Files in jamesdalg/HiCNV
A Versatile Toolkit for Copy Number Variation Relationship Data Analysis and Visualization
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/GRanges_to_underscored_pos.R
R/HiCNVserver.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/runHiCNVShiny.R
R/signedRescale.R
R/underscored_pos_to_GRanges.R
R/writeAsymmetricMeltedMatrixToDisk.R
R/writeMeltedChromosomalMatrixToDisk.R
data/nbl_result_matrix_sign_small.rda
hicnv.Rproj
inst/doc/create_input_matrix.R
inst/doc/create_input_matrix.Rmd
inst/doc/create_input_matrix.html
inst/doc/create_output_matrix.R
inst/doc/create_output_matrix.Rmd
inst/doc/create_output_matrix.html
inst/extdata/ensembl_gene_tx_table_prot.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/GRanges_to_underscored_pos.Rd
man/HiCNVserver.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/runHiCNVShiny.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_output_matrix.Rmd
vignettes/download_from_cart.png
vignettes/interchromosomal_view.png
vignettes/nbl_result_matrix_small.rds
vignettes/nbl_slurm_object_test_zero_removed.rds
