recipe ngseqbasic

Basic ChIP/DNaseI/ATAC analysis - from FASTQ to visualisation of tracks, in one command.

Homepage:

http://userweb.molbiol.ox.ac.uk/public/telenius/NGseqBasicManual/external/instructionsBioconda.html

License:

GPL-3.0

Recipe:

/ngseqbasic/meta.yaml

package ngseqbasic

Versions:

2.0.1-1,  2.0.1-0

Depends:

• bedtools ==2.17.0

• bowtie ==1.0.0

• bowtie2 ==2.3.0

• flash ==1.2.11

• perl 5.22.0.1

• samtools ==0.1.19

• trim-galore ==0.4.1

• ucsc-bedclip ==332

• ucsc-bedgraphpack ==332

• ucsc-bedgraphtobigwig ==332

• ucsc-bedtobigbed ==332

Required By:

Installation

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

conda install ngseqbasic

and update with:

conda update ngseqbasic

or use the docker container:

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

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

Download stats

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/ngseqbasic/README.html)