Package: DNAcopy 1.81.0
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_1.81.0.tar.gz
DNAcopy_1.81.0.zip(r-4.5)DNAcopy_1.81.0.zip(r-4.4)DNAcopy_1.81.0.zip(r-4.3)
DNAcopy_1.81.0.tgz(r-4.4-x86_64)DNAcopy_1.81.0.tgz(r-4.4-arm64)DNAcopy_1.81.0.tgz(r-4.3-x86_64)DNAcopy_1.81.0.tgz(r-4.3-arm64)
DNAcopy_1.81.0.tar.gz(r-4.5-noble)DNAcopy_1.81.0.tar.gz(r-4.4-noble)
DNAcopy_1.81.0.tgz(r-4.4-emscripten)DNAcopy_1.81.0.tgz(r-4.3-emscripten)
DNAcopy.pdf |DNAcopy.html✨
DNAcopy/json (API)
NEWS
| # Install 'DNAcopy' in R: |
| install.packages('DNAcopy', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- coriell - Array CGH data set of Coriell cell lines
- cytoBand - Cytogenic band data
- default.DNAcopy.bdry - Sequential stopping boundary
On BioConductor:DNAcopy-1.79.0(bioc 3.20)DNAcopy-1.78.0(bioc 3.19)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 23 days agofrom:8c04c59ec6. Checks:OK: 9. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 30 2024 |
| R-4.5-win-x86_64 | OK | Oct 30 2024 |
| R-4.5-linux-x86_64 | OK | Oct 30 2024 |
| R-4.4-win-x86_64 | OK | Oct 30 2024 |
| R-4.4-mac-x86_64 | OK | Oct 30 2024 |
| R-4.4-mac-aarch64 | OK | Oct 30 2024 |
| R-4.3-win-x86_64 | OK | Oct 30 2024 |
| R-4.3-mac-x86_64 | OK | Oct 30 2024 |
| R-4.3-mac-aarch64 | OK | Oct 30 2024 |
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 |
