recipe gembs

gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (WGBS).

Homepage:

https://github.com/heathsc/gemBS

License:

GPL-3.0

Recipe:

/gembs/meta.yaml

Links:

doi: 10.1101/201988

package gembs

Versions:

3.5.5_IHEC-6,  3.5.5_IHEC-5,  3.5.5_IHEC-4,  3.5.5_IHEC-3,  3.5.5_IHEC-2,  3.5.5_IHEC-1,  3.5.5_IHEC-0,  3.5.1_IHEC-0,  3.5.0-1, 

3.5.5_IHEC-6,  3.5.5_IHEC-5,  3.5.5_IHEC-4,  3.5.5_IHEC-3,  3.5.5_IHEC-2,  3.5.5_IHEC-1,  3.5.5_IHEC-0,  3.5.1_IHEC-0,  3.5.0-1,  3.5.0-0,  3.2.0-5,  3.2.0-4,  3.2.0-3,  3.2.0-2,  3.2.0-1,  3.2.0-0

Depends:

• bcftools

• bs_call

• bzip2 >=1.0.8,<2.0a0

• gem3-mapper

• htslib >=1.17,<1.18.0a0

• libgcc-ng >=12

• libzlib >=1.2.13,<1.3.0a0

• matplotlib-base

• multiprocess

• openssl >=1.1.1t,<1.1.2a

• pigz

• python >=3.10,<3.11.0a0

• python_abi 3.10.* *_cp310

• samtools

• setuptools

• ucsc-bedtobigbed

• ucsc-wigtobigwig

• zlib >=1.2.13,<1.3.0a0

Required By:

Installation

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

conda install gembs

and update with:

conda update gembs

or use the docker container:

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

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

Download stats

Link to this page

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