-
recipe
bioconductor-isoformswitchanalyzer¶ IsoformSwitchAnalyzeR enables identification and analysis of alternative splicing and isoform switches with predicted functional consequences (e.g. gain/loss of protein domains etc.) from quantification by Kallisto, Salmon, Cufflinks/Cuffdiff, RSEM etc.
- Homepage
https://bioconductor.org/packages/3.9/bioc/html/IsoformSwitchAnalyzeR.html
- License
GPL (>= 2)
- Recipe
- Links
biotools: IsoformSwitchAnalyzeR, doi: 10.1158/1541-7786.MCR-16-0459
-
package
bioconductor-isoformswitchanalyzer¶ 
- Versions
1.4.0-0, 1.2.0-0, 1.0.0-0
- Depends bioconductor-biostrings
>=2.50.0,<2.51.0
- Depends bioconductor-bsgenome
>=1.50.0,<1.51.0
- Depends bioconductor-dexseq
>=1.28.0,<1.29.0
- Depends bioconductor-drimseq
>=1.10.0,<1.11.0
- Depends bioconductor-edger
>=3.24.0,<3.25.0
- Depends bioconductor-genomeinfodb
>=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-limma
>=3.38.0,<3.39.0
- Depends bioconductor-rtracklayer
>=1.42.0,<1.43.0
- Depends bioconductor-tximport
>=1.10.0,<1.11.0
- Depends libgcc-ng
>=7.3.0
- Depends r-base
>=3.5.1,<3.5.2.0a0
- Depends r-dbi
- Depends r-dplyr
- Depends r-futile.logger
- Depends r-ggplot2
- Depends r-gridextra
- Depends r-magrittr
- Depends r-plyr
- Depends r-rcolorbrewer
- Depends r-readr
- Depends r-reshape2
- Depends r-stringr
- Depends r-venndiagram
- Requirements
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-isoformswitchanalyzer
and update with:
conda update bioconductor-isoformswitchanalyzer
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-isoformswitchanalyzer:<tag>
(see bioconductor-isoformswitchanalyzer/tags for valid values for
<tag>)
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-isoformswitchanalyzer/README.html)