-
recipe
bioconductor-copywriter¶ CopywriteR extracts DNA copy number information from targeted sequencing by utiizing off-target reads. It allows for extracting uniformly distributed copy number information, can be used without reference, and can be applied to sequencing data obtained from various techniques including chromatin immunoprecipitation and target enrichment on small gene panels. Thereby, CopywriteR constitutes a widely applicable alternative to available copy number detection tools.
- Homepage
https://bioconductor.org/packages/3.9/bioc/html/CopywriteR.html
- License
GPL-2
- Recipe
- Links
biotools: copywriter, doi: 10.1186/s13059-015-0617-1
-
package
bioconductor-copywriter¶ 
- Versions
2.14.0-0, 2.12.0-0, 2.10.0-0
- Depends bioconductor-biocparallel
>=1.16.0,<1.17.0
- Depends bioconductor-chipseq
>=1.32.0,<1.33.0
- Depends bioconductor-copyhelper
>=1.14.0,<1.15.0
- Depends bioconductor-dnacopy
>=1.56.0,<1.57.0
- Depends bioconductor-genomeinfodb
>=1.18.0,<1.19.0
- Depends bioconductor-genomicalignments
>=1.18.0,<1.19.0
- Depends bioconductor-genomicranges
>=1.34.0,<1.35.0
- Depends bioconductor-iranges
>=2.16.0,<2.17.0
- Depends bioconductor-rsamtools
>=1.34.0,<1.35.0
- Depends bioconductor-s4vectors
>=0.20.0,<0.21.0
- Depends r-base
>=3.5.1,<3.5.2.0a0
- Depends r-data.table
- Depends r-futile.logger
- Depends r-gtools
- Depends r-matrixstats
- Requirements
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-copywriter
and update with:
conda update bioconductor-copywriter
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-copywriter:<tag>
(see bioconductor-copywriter/tags for valid values for
<tag>)
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-copywriter/README.html)