recipe hocort

HoCoRT - Host Contamination Removal Tool

Homepage:

https://github.com/ignasrum/hocort

License:

MIT / MIT

Recipe:

/hocort/meta.yaml

package hocort

versions:

1.2.2-0,  1.2.1-0,  1.2.0-0,  1.1.0-0,  1.0.0-0,  0.3.3-0,  0.3.2-0

depends bbmap:

depends biobloomtools:

depends bowtie2:

depends bwa-mem2:

depends hisat2:

depends kraken2:

>=2.1.2

depends minimap2:

depends python:

>=3.7,<3.10

depends samtools:

>=1.8

depends tbb:

2020.2.*

requirements:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install hocort

and update with::

   mamba update hocort

To create a new environment, run:

mamba create --name myenvname hocort

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

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

(see `hocort/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/hocort/README.html)