Provides the ability to create interaction maps, discover CNV map domains (edges), gene annotate interactions, and create interactive visualizations of these CNV interaction maps.
| Version: | 3.7.2 |
| Depends: | R (≥ 4.1.0), ggplot2 |
| Imports: | tidyr, reshape2, magrittr, jointseg, shiny, RCurl, foreach, GenomicInteractions, Matrix, OpenImageR, biomaRt, matrixStats, plyr, data.table, dplyr, doParallel, stringr, rtracklayer, Hmisc |
| Suggests: | knitr, remotes, pwr, ComplexHeatmap, rmarkdown, HiCseg, igraph, visNetwork, circlize, plotly, InteractionSet, GenomicRanges, GenomicFeatures, IRanges, rslurm, shinythemes, shinycssloaders, DT, logging, heatmaply, S4Vectors, BiocManager, shinyjs, htmltools, htmlwidgets, GenomeInfoDb, BSgenome.Hsapiens.UCSC.hg19, tibble, smoothie |
| Published: | 2022-03-30 |
| DOI: | 10.32614/CRAN.package.CNVScope |
| Author: | James Dalgeish, Yonghong Wang, Jack Zhu, Paul Meltzer |
| Maintainer: | James Dalgleish <james.dalgleish at nih.gov> |
| BugReports: | https://github.com/jamesdalg/CNVScope/issues/ |
| License: | BSD_3_clause + file LICENSE |
| URL: | https://github.com/jamesdalg/CNVScope/ |
| NeedsCompilation: | no |
| Materials: | NEWS |
| CRAN checks: | CNVScope results |
| Reference manual: | CNVScope.pdf |
| Vignettes: |
Additional Visualization Examples (source, R code) Creating the TARGET Input matrix from public data (source, R code) Linear Regression/Postprocess (source, R code) Power Analysis (source, R code) |
| Package source: | CNVScope_3.7.2.tar.gz |
| Windows binaries: | r-devel: CNVScope_3.7.2.zip, r-release: CNVScope_3.7.2.zip, r-oldrel: CNVScope_3.7.2.zip |
| macOS binaries: | r-release (arm64): CNVScope_3.7.2.tgz, r-oldrel (arm64): CNVScope_3.7.2.tgz, r-release (x86_64): CNVScope_3.7.2.tgz, r-oldrel (x86_64): CNVScope_3.7.2.tgz |
| Old sources: | CNVScope archive |
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