recipe megapath

MegaPath: sensitive and rapid pathogen detection using metagenomic NGS data; MegaPath-Amplicon: filtering module for metagenomic amplicon data

Homepage:

https://github.com/HKU-BAL/MegaPath

License:

BSD-3-Clause

Recipe:

/megapath/meta.yaml

package megapath

Versions:

2-3,  2-2,  2-1,  2-0,  1.0-0

Depends:

• bedtools

• bwa 0.7.12.*

• gatk4

• libgcc-ng >=12

• libstdcxx-ng >=12

• libzlib >=1.2.13,<1.3.0a0

• megahit 1.1.*

• minimap2

• pandas

• parallel 20191122.*

• pypy3.6

• pysam 0.16.0.1.*

• python 3.6.*

• samtools 1.10.*

• seqtk

Required By:

Installation

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

conda install megapath

and update with:

conda update megapath

or use the docker container:

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

(see megapath/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/megapath/README.html)