- recipe bioconductor-casper
Characterization of Alternative Splicing based on Paired-End Reads
- Homepage
https://bioconductor.org/packages/3.14/bioc/html/casper.html
- License
GPL (>=2)
- Recipe
Infer alternative splicing from paired-end RNA-seq data. The model is based on counting paths across exons, rather than pairwise exon connections, and estimates the fragment size and start distributions non-parametrically, which improves estimation precision.
- package bioconductor-casper¶
-
- Versions
2.28.0-1
,2.28.0-0
,2.26.0-0
,2.23.0-0
,2.22.0-0
,2.20.0-0
,2.18.0-1
,2.16.0-0
,2.14.0-0
,2.28.0-1
,2.28.0-0
,2.26.0-0
,2.23.0-0
,2.22.0-0
,2.20.0-0
,2.18.0-1
,2.16.0-0
,2.14.0-0
,2.12.0-0
,2.10.0-0
- Depends
bioconductor-biobase
>=2.54.0,<2.55.0
bioconductor-biocgenerics
>=0.40.0,<0.41.0
bioconductor-ebarrays
>=2.58.0,<2.59.0
bioconductor-gaga
>=2.40.0,<2.41.0
bioconductor-genomeinfodb
>=1.30.0,<1.31.0
bioconductor-genomicfeatures
>=1.46.0,<1.47.0
bioconductor-genomicranges
>=1.46.0,<1.47.0
bioconductor-iranges
>=2.28.0,<2.29.0
bioconductor-limma
>=3.50.0,<3.51.0
bioconductor-rsamtools
>=2.10.0,<2.11.0
bioconductor-rtracklayer
>=1.54.0,<1.55.0
bioconductor-s4vectors
>=0.32.0,<0.33.0
libblas
>=3.8.0,<4.0a0
libgcc-ng
>=10.3.0
liblapack
>=3.8.0,<4.0a0
libstdcxx-ng
>=10.3.0
r-base
>=4.1,<4.2.0a0
- Required By
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-casper
and update with:
conda update bioconductor-casper
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-casper:<tag>
(see bioconductor-casper/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-casper/README.html)