recipe bismark

Bismark is a program to map bisulfite treated sequencing reads to a genome of interest and perform methylation calls in a single step. The output can be easily imported into a genome viewer, such as SeqMonk, and enables a researcher to analyse the methylation levels of their samples straight away.

Homepage:

https://github.com/FelixKrueger/Bismark/

License:

GPL3 / GNU General Public License v3 (GPLv3)

Recipe:

/bismark/meta.yaml

Links:

biotools: bismark, usegalaxy-eu: bismark_bowtie2

package bismark

Versions:

0.24.1-0,  0.24.0-1,  0.24.0-0,  0.23.1-0,  0.23.0-1,  0.23.0-0,  0.22.3-0,  0.22.2-0,  0.22.1-0, 

0.24.1-0,  0.24.0-1,  0.24.0-0,  0.23.1-0,  0.23.0-1,  0.23.0-0,  0.22.3-0,  0.22.2-0,  0.22.1-0,  0.22.0-0,  0.21.0-0,  0.20.0-0,  0.19.1-0,  0.19.0-1,  0.19.0-0,  0.18.1-0,  0.17.0-0

Depends:

• bowtie2

• coreutils

• hisat2

• minimap2

• perl

• samtools

Required By:

• ctseq

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bismark

and update with:

conda update bismark

or use the docker container:

docker pull quay.io/biocontainers/bismark:<tag>

(see bismark/tags for valid values for <tag>)

Download stats

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