recipe bioconductor-bsseq

Analyze, manage and store bisulfite sequencing data

Homepage

https://bioconductor.org/packages/3.11/bioc/html/bsseq.html

License

Artistic-2.0

Recipe

/bioconductor-bsseq/meta.yaml

Links

biotools: bsseq

A collection of tools for analyzing and visualizing bisulfite sequencing data.

package bioconductor-bsseq

Versions

1.24.0-0,  1.22.0-0,  1.20.0-1,  1.18.0-0,  1.16.1-0,  1.14.0-0

Depends

• bioconductor-beachmat >=2.4.0,<2.5.0

• bioconductor-biobase >=2.48.0,<2.49.0

• bioconductor-biocgenerics >=0.34.0,<0.35.0

• bioconductor-biocparallel >=1.22.0,<1.23.0

• bioconductor-biostrings >=2.56.0,<2.57.0

• bioconductor-bsgenome >=1.56.0,<1.57.0

• bioconductor-delayedarray >=0.14.0,<0.15.0

• bioconductor-delayedmatrixstats >=1.10.0,<1.11.0

• bioconductor-genomeinfodb >=1.24.0,<1.25.0

• bioconductor-genomicranges >=1.40.0,<1.41.0

• bioconductor-hdf5array >=1.16.0,<1.17.0

• bioconductor-iranges >=2.22.0,<2.23.0

• bioconductor-limma >=3.44.0,<3.45.0

• bioconductor-rhdf5 >=2.32.0,<2.33.0

• bioconductor-s4vectors >=0.26.0,<0.27.0

• bioconductor-summarizedexperiment >=1.18.0,<1.19.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=7.3.0

• liblapack >=3.8.0,<3.9.0a0

• libstdcxx-ng >=7.3.0

• r-base >=4.0,<4.1.0a0

• r-data.table >=1.11.8

• r-gtools

• r-locfit

• r-permute

• r-r.utils >=2.0.0

• r-rcpp

• r-scales

Required By

• bioconductor-dmrseq

• bioconductor-methcp

• bioconductor-scmeth

• bioconductor-bsseqdata

• bioconductor-methylcc

• bioconductor-dmrcate

• bioconductor-dss

• bioconductor-biscuiteer

• bioconductor-mira

• bioconductor-methylsig

• bioconductor-tcgawgbsdata.hg19

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-bsseq

and update with:

conda update bioconductor-bsseq

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-bsseq:<tag>

(see bioconductor-bsseq/tags for valid values for <tag>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-bsseq/README.html)