- recipe bioconductor-easyrnaseq
Count summarization and normalization for RNA-Seq data
- Homepage
https://bioconductor.org/packages/3.14/bioc/html/easyRNASeq.html
- License
Artistic-2.0
- Recipe
Calculates the coverage of high-throughput short-reads against a genome of reference and summarizes it per feature of interest (e.g. exon, gene, transcript). The data can be normalized as 'RPKM' or by the 'DESeq' or 'edgeR' package.
- package bioconductor-easyrnaseq¶
-
- Versions
2.30.0-0
,2.28.0-0
,2.24.1-0
,2.22.0-0
,2.20.0-1
,2.18.2-0
,2.16.0-0
,2.14.0-0
- Depends
bioconductor-biobase
>=2.54.0,<2.55.0
bioconductor-biocfilecache
>=2.2.0,<2.3.0
bioconductor-biocgenerics
>=0.40.0,<0.41.0
bioconductor-biocparallel
>=1.28.0,<1.29.0
bioconductor-biomart
>=2.50.0,<2.51.0
bioconductor-biostrings
>=2.62.0,<2.63.0
bioconductor-edger
>=3.36.0,<3.37.0
bioconductor-genomeinfodb
>=1.30.0,<1.31.0
bioconductor-genomeintervals
>=1.50.0,<1.51.0
bioconductor-genomicalignments
>=1.30.0,<1.31.0
bioconductor-genomicranges
>=1.46.0,<1.47.0
bioconductor-iranges
>=2.28.0,<2.29.0
bioconductor-rsamtools
>=2.10.0,<2.11.0
bioconductor-s4vectors
>=0.32.0,<0.33.0
bioconductor-shortread
>=1.52.0,<1.53.0
bioconductor-summarizedexperiment
>=1.24.0,<1.25.0
r-base
>=4.1,<4.2.0a0
r-lsd
>=4.1-0
r-rappdirs
>=0.3.1
- Required By
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-easyrnaseq
and update with:
conda update bioconductor-easyrnaseq
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-easyrnaseq:<tag>
(see bioconductor-easyrnaseq/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-easyrnaseq/README.html)