https://github.com/krasnitzlab/cnprep
CNprep Package - Pre-process DNA Copy Number (CN) Data for Detection of CN Events
https://github.com/krasnitzlab/cnprep
bootstrap copy-number copy-number-variation dna-copy-number r r-package
Last synced: 2 months ago
JSON representation
CNprep Package - Pre-process DNA Copy Number (CN) Data for Detection of CN Events
- Host: GitHub
- URL: https://github.com/krasnitzlab/cnprep
- Owner: KrasnitzLab
- Created: 2020-02-28T21:37:08.000Z (over 5 years ago)
- Default Branch: master
- Last Pushed: 2022-05-19T01:55:08.000Z (about 3 years ago)
- Last Synced: 2025-03-26T03:18:36.727Z (3 months ago)
- Topics: bootstrap, copy-number, copy-number-variation, dna-copy-number, r, r-package
- Language: R
- Homepage:
- Size: 5.99 MB
- Stars: 3
- Watchers: 2
- Forks: 2
- Open Issues: 1
-
Metadata Files:
- Readme: README.md
Awesome Lists containing this project
README
[](https://github.com/adeschen/CNprep/actions/workflows/check-bioc.yml)
[](https://codecov.io/gh/KrasnitzLab/CNprep)
[](https://www.gnu.org/licenses/old-licenses/gpl-2.0.en.html)
# CNprep 
A R package that evaluates DNA copy number data, 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 normal state.
## Citing ##
If you use this package for a publication, we would ask you to cite the
following:
> Belleau P, Deschênes A, Sun G et al. CNprep: Copy number event detection [version 1; not peer reviewed]. F1000Research 2020, 9:743 (poster) (https://doi.org/10.7490/f1000research.1118065.1)
## Authors ##
Guoli Sun, [Pascal Belleau](http://ca.linkedin.com/in/pascalbelleau "Pascal Belleau"), [Astrid Deschênes](http://ca.linkedin.com/in/astriddeschenes "Astrid Deschênes") and Alexander Krasnitz
## Installation ##
To install the latest accessible version, the [devtools](https://cran.r-project.org/web/packages/devtools/index.html)
package is required.
```r
## To install the development version from GitHub
install.packages("devtools")
devtools::install_github("KrasnitzLab/CNprep")
```
## License ##
This package and the underlying *CNprep* code are distributed under
the GPL-2. You are free to use and redistribute this software.
For more information on GPL-2 License see
[https://www.gnu.org/licenses/old-licenses/gpl-2.0.txt](https://www.gnu.org/licenses/old-licenses/gpl-2.0.txt)
## Bugs/Feature requests ##
If you have any bugs or feature requests,
[let us know](https://github.com/KrasnitzLab/CNprep/issues).
Thanks!