Package: CNprep 2.2
CNprep: Pre-Process DNA Copy Number (CN) Data for Detection of CN Events
DNA copy number data evaluation using both their initial form (copy number as a noisy function of genomic position) and their approximation by a piecewise-constant function (segmentation), for the purpose of identifying genomic regions where the copy number differs from the norm.
Authors:
CNprep_2.2.tar.gz
CNprep_2.2.zip(r-4.5)CNprep_2.2.zip(r-4.4)CNprep_2.2.zip(r-4.3)
CNprep_2.2.tgz(r-4.4-any)CNprep_2.2.tgz(r-4.3-any)
CNprep_2.2.tar.gz(r-4.5-noble)CNprep_2.2.tar.gz(r-4.4-noble)
CNprep_2.2.tgz(r-4.4-emscripten)CNprep_2.2.tgz(r-4.3-emscripten)
CNprep.pdf |CNprep.html✨
CNprep/json (API)
| # Install 'CNprep' in R: |
| install.packages('CNprep', repos = c('https://gsun2018.r-universe.dev', 'https://cloud.r-project.org')) |
- annotexample - Annotation table for ROMA CGH platform and human genome version 17.
- cnpexample - Example of a boundary positions table.
- normsegs - A reference set of segments
- ratexample - Example of copy number log ratio data
- segexample - Example of a segmented copy number table.
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 2 years agofrom:fb1c7cba7a. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 26 2024 |
| R-4.5-win | OK | Oct 26 2024 |
| R-4.5-linux | OK | Oct 26 2024 |
| R-4.4-win | OK | Oct 26 2024 |
| R-4.4-mac | OK | Oct 26 2024 |
| R-4.3-win | OK | Oct 26 2024 |
| R-4.3-mac | OK | Oct 26 2024 |
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Annotation table for ROMA CGH platform and human genome version 17. | annotexample |
| Apply a mask to a table of copy number events. | applyCNPmask |
| Example of a boundary positions table. | cnpexample |
| Pre-process DNA copy number (CN) data for detection of CN events. | CNpreprocessing |
| Given a set of copy-number events, create a DNA copy-number mask | makeCNPmask |
| A reference set of segments | normsegs |
| Example of copy number log ratio data | ratexample |
| Example of a segmented copy number table. | segexample |
