-
recipe
bioconductor-cager¶ Preprocessing of CAGE sequencing data, identification and normalization of transcription start sites and downstream analysis of transcription start sites clusters (promoters).
- Homepage
- License
GPL-3
- Recipe
- Links
biotools: cager
-
package
bioconductor-cager¶ 
- Versions
1.24.0-0, 1.22.3-0, 1.20.0-0, 1.18.1-0, 1.16.0-0
- Depends bioconductor-biocgenerics
>=0.28.0,<0.29.0
- Depends bioconductor-biocparallel
>=1.16.0,<1.17.0
- Depends bioconductor-bsgenome
>=1.50.0,<1.51.0
- Depends bioconductor-delayedarray
>=0.8.0,<0.9.0
- Depends bioconductor-genomeinfodb
>=1.18.0,<1.19.0
- Depends bioconductor-genomicalignments
>=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-multiassayexperiment
>=1.8.0,<1.9.0
- Depends bioconductor-rsamtools
>=1.34.0,<1.35.0
- Depends bioconductor-rtracklayer
>=1.42.0,<1.43.0
- Depends bioconductor-s4vectors
>=0.20.0,<0.21.0
- Depends bioconductor-summarizedexperiment
>=1.12.0,<1.13.0
- Depends r-base
>=3.5.1,<3.5.2.0a0
- Depends r-beanplot
- Depends r-data.table
- Depends r-formula.tools
- Depends r-ggplot2
>=2.2.0
- Depends r-gtools
- Depends r-kernsmooth
- Depends r-memoise
- Depends r-plyr
- Depends r-reshape
- Depends r-som
- Depends r-stringdist
- Depends r-stringi
- Depends r-vegan
- Depends r-vgam
- Requirements
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-cager
and update with:
conda update bioconductor-cager
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-cager:<tag>
(see bioconductor-cager/tags for valid values for
<tag>)
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-cager/README.html)