-
recipe
bioconductor-isoformswitchanalyzer
¶ Identify, Annotate and Visualize Alternative Splicing and Isoform Switches with Functional Consequences from both short- and long-read RNA-seq data.
- Homepage
https://bioconductor.org/packages/3.10/bioc/html/IsoformSwitchAnalyzeR.html
- License
GPL (>= 2)
- Recipe
- Links
biotools: IsoformSwitchAnalyzeR, doi: 10.1158/1541-7786.MCR-16-0459
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 of all types of RNASeq by tools such as Kallisto, Salmon, Cufflinks/Cuffdiff, RSEM etc.
-
package
bioconductor-isoformswitchanalyzer
¶ -
- Versions
1.8.0-0, 1.6.0-1, 1.4.0-0, 1.2.0-0, 1.0.0-0
- Depends
bioconductor-biostrings >=2.54.0,<2.55.0
bioconductor-bsgenome >=1.54.0,<1.55.0
bioconductor-dexseq >=1.32.0,<1.33.0
bioconductor-drimseq >=1.14.0,<1.15.0
bioconductor-edger >=3.28.0,<3.29.0
bioconductor-genomeinfodb >=1.22.0,<1.23.0
bioconductor-genomicranges >=1.38.0,<1.39.0
bioconductor-iranges >=2.20.0,<2.21.0
bioconductor-limma >=3.42.0,<3.43.0
bioconductor-rtracklayer >=1.46.0,<1.47.0
bioconductor-tximport >=1.14.0,<1.15.0
bioconductor-xvector >=0.26.0,<0.27.0
libgcc-ng >=7.3.0
r-base >=3.6,<3.7.0a0
- Required By
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)