- recipe bioconductor-oncoscanr
Secondary analyses of CNV data (HRD and more)
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/oncoscanR.html
- License:
MIT + file LICENSE
- Recipe:
The software uses the copy number segments from a text file and identifies all chromosome arms that are globally altered and computes various genome-wide scores. The following HRD scores (characteristic of BRCA-mutated cancers) are included: LST, HR-LOH, nLST and gLOH. the package is tailored for the ThermoFisher Oncoscan assay analyzed with their Chromosome Alteration Suite (ChAS) but can be adapted to any input.
- package bioconductor-oncoscanr¶
-
- Versions:
1.0.0-0
- Depends:
bioconductor-genomicranges
>=1.50.0,<1.51.0
bioconductor-iranges
>=2.32.0,<2.33.0
bioconductor-s4vectors
>=0.36.0,<0.37.0
r-base
>=4.2,<4.3.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-oncoscanr
and update with:
conda update bioconductor-oncoscanr
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-oncoscanr:<tag>
(see bioconductor-oncoscanr/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-oncoscanr/README.html)