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Segmentation of allele-specific DNA copy number data and detection of regions with abnormal copy number within each parental chromosome. Both tumor-normal paired and tumor-only analyses are supported.
| Version: | 0.67.0 |
| Depends: | R (≥ 3.2.0) |
| Imports: | R.methodsS3 (≥ 1.8.2), R.oo (≥ 1.25.0), R.utils (≥ 2.12.0), R.cache (≥ 0.16.0), matrixStats (≥ 0.62.0), aroma.light (≥ 2.4.0), DNAcopy (≥ 1.42.0), listenv (≥ 0.8.0), future (≥ 1.28.0), parallel, graphics, grDevices, stats, utils |
| Suggests: | R.rsp (≥ 0.45.0), R.devices (≥ 2.17.1), ggplot2 (≥ 3.2.1) |
| Published: | 2024-02-17 |
| DOI: | 10.32614/CRAN.package.PSCBS |
| Author: | Henrik Bengtsson [aut, cre, cph], Pierre Neuvial [aut], Venkatraman E. Seshan [aut], Adam B. Olshen [aut], Paul T. Spellman [aut], Richard A. Olshen [aut], Frank E Harrell Jr [ctb] (Weighted quantile estimator adopted from Hmisc::wtd.quantile()) |
| Maintainer: | Henrik Bengtsson <henrikb at braju.com> |
| BugReports: | https://github.com/HenrikBengtsson/PSCBS/issues |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| URL: | https://github.com/HenrikBengtsson/PSCBS |
| NeedsCompilation: | no |
| Citation: | PSCBS citation info |
| Materials: | README NEWS |
| In views: | Omics |
| CRAN checks: | PSCBS results |
| Reference manual: | PSCBS.pdf |
| Vignettes: |
Total copy-number segmentation using CBS Parent-specific copy-number segmentation using Paired PSCBS |
| Package source: | PSCBS_0.67.0.tar.gz |
| Windows binaries: | r-devel: PSCBS_0.67.0.zip, r-release: PSCBS_0.67.0.zip, r-oldrel: PSCBS_0.67.0.zip |
| macOS binaries: | r-release (arm64): PSCBS_0.67.0.tgz, r-oldrel (arm64): PSCBS_0.67.0.tgz, r-release (x86_64): PSCBS_0.67.0.tgz, r-oldrel (x86_64): PSCBS_0.67.0.tgz |
| Old sources: | PSCBS archive |
| Reverse imports: | aroma.cn, aroma.core, cfdnakit, EstMix |
| Reverse suggests: | jointseg, PureCN |
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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.