Overview | Data | An Example | Tips
Package: DNAcopy 1.87.0
Venkatraman E. Seshan
DNAcopy: DNA Copy Number Data Analysis
Implements the circular binary segmentation (CBS) algorithm to segment DNA copy number data and identify genomic regions with abnormal copy number.
Authors:
DNAcopy_1.87.0.tar.gz
DNAcopy_1.87.0.zip(r-4.7)DNAcopy_1.87.0.zip(r-4.6)DNAcopy_1.87.0.zip(r-4.5)
DNAcopy_1.87.0.tgz(r-4.6-x86_64)DNAcopy_1.87.0.tgz(r-4.6-arm64)DNAcopy_1.87.0.tgz(r-4.5-x86_64)DNAcopy_1.87.0.tgz(r-4.5-arm64)
DNAcopy_1.87.0.tar.gz(r-4.7-arm64)DNAcopy_1.87.0.tar.gz(r-4.7-x86_64)DNAcopy_1.87.0.tar.gz(r-4.6-arm64)DNAcopy_1.87.0.tar.gz(r-4.6-x86_64)
DNAcopy_1.87.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
DNAcopy/json (API)
| # Install 'DNAcopy' in R: |
| install.packages('DNAcopy', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Datasets:
- coriell - Array CGH data set of Coriell cell lines
- cytoBand - Cytogenic band data
- default.DNAcopy.bdry - Sequential stopping boundary
On BioConductor:DNAcopy-1.87.0(bioc 3.24)DNAcopy-1.86.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
microarraycopynumbervariationfortran
Last updated from:c86b069f7a. Checks:1 ERROR, 13 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 137 | ||
| linux-devel-arm64 | OK | 125 | ||
| linux-devel-x86_64 | OK | 139 | ||
| source / vignettes | OK | 144 | ||
| linux-release-arm64 | OK | 119 | ||
| linux-release-x86_64 | OK | 160 | ||
| macos-release-arm64 | OK | 121 | ||
| macos-release-x86_64 | OK | 213 | ||
| macos-oldrel-arm64 | OK | 85 | ||
| macos-oldrel-x86_64 | OK | 314 | ||
| windows-devel | OK | 100 | ||
| windows-release | OK | 153 | ||
| windows-oldrel | OK | 101 | ||
| wasm-release | OK | 83 |
Exports:CNAexon.segmentgetbdryglFrequencyplotSamplesegmentsegments.psegments.summarysmooth.CNAzoomIntoRegion
Dependencies:
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Create `Copy Number Array' data object | CNA print.CNA |
| Array CGH data set of Coriell cell lines | coriell |
| Cytogenic band data | cytoBand |
| Results of segmenting a CNA data object | DNAcopy print.DNAcopy |
| Binary segmentation of exon data. | exon.segment |
| Sequential stopping boundary | default.DNAcopy.bdry getbdry |
| Additional summary measured for the segments | glFrequency |
| Plot the data and results from segment of a CNA object | plot.DNAcopy |
| Plot the data and results from segmentation for a single sample | plotSample |
| Genome Segmentation Program | segment |
| p-values for the change-points | segments.p |
| Additional summary measured for the segments | segments.summary |
| Smooth a `Copy Number Array' data object | smooth.CNA |
| Subset a `Copy Number Array' data object | subset.CNA |
| Subset a DNAcopy data object | subset.DNAcopy |
| Zoomed in view of genomic region | zoomIntoRegion |
