recipe qcumber

Quality control, quality trimming, adapter removal and sequence content check of NGS data.

Homepage:

https://gitlab.com/RKIBioinformaticsPipelines/QCumber

License:

LGPL3

Recipe:

/qcumber/meta.yaml

package qcumber

Versions:

2.0.4-0

Depends:

• bioconductor-savr

• bitstring

• bowtie2 2.3.*

• docopt

• fastqc 0.11.*

• jinja2

• kraken 0.10.*

• krona

• matplotlib 2.0.*

• numpy

• pandas

• python 3.6.*

• pyyaml 3.12.*

• r 3.3.*

• r-ggplot2 2.2.*

• r-quantreg

• r-reshape2

• r-stringi

• samtools 1.3.*

• seaborn

• setuptools

• snakemake 3.12.*

• trimmomatic 0.36.*

• xmltodict

Required By:

Installation

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

conda install qcumber

and update with:

conda update qcumber

or use the docker container:

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

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

Download stats

Link to this page

Render an badge with the following MarkDown:

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