- recipe bioconductor-qdnaseq
Quantitative DNA Sequencing for Chromosomal Aberrations
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/QDNAseq.html
- License:
GPL
- Recipe:
- Links:
biotools: qdnaseq
Quantitative DNA sequencing for chromosomal aberrations. The genome is divided into non-overlapping fixed-sized bins, number of sequence reads in each counted, adjusted with a simultaneous two-dimensional loess correction for sequence mappability and GC content, and filtered to remove spurious regions in the genome. Downstream steps of segmentation and calling are also implemented via packages DNAcopy and CGHcall, respectively.
- package bioconductor-qdnaseq¶
-
- Versions:
1.34.0-0
,1.30.0-0
,1.28.0-0
,1.26.0-1
,1.26.0-0
,1.24.0-0
,1.22.0-0
,1.20.0-1
,1.18.0-0
,1.34.0-0
,1.30.0-0
,1.28.0-0
,1.26.0-1
,1.26.0-0
,1.24.0-0
,1.22.0-0
,1.20.0-1
,1.18.0-0
,1.16.0-0
,1.14.0-0
,1.12.0-0
,1.10.0-0
,1.8.0-0
- Depends:
bioconductor-biobase
>=2.58.0,<2.59.0
bioconductor-cghbase
>=1.58.0,<1.59.0
bioconductor-cghcall
>=2.60.0,<2.61.0
bioconductor-dnacopy
>=1.72.0,<1.73.0
bioconductor-genomicranges
>=1.50.0,<1.51.0
bioconductor-iranges
>=2.32.0,<2.33.0
bioconductor-rsamtools
>=2.14.0,<2.15.0
r-base
>=4.2,<4.3.0a0
r-future.apply
>=1.8.1
r-matrixstats
>=0.60.0
r-r.utils
>=2.9.0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-qdnaseq
and update with:
conda update bioconductor-qdnaseq
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-qdnaseq:<tag>
(see bioconductor-qdnaseq/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-qdnaseq/README.html)