recipe hostile

Hostile: accurate host decontamination

Homepage:

https://github.com/bede/hostile

License:

MIT / MIT

Recipe:

/hostile/meta.yaml

Links:

doi: 10.1093/bioinformatics/btad728

package hostile

versions:

1.1.0-0,  1.0.0-0,  0.4.0-0,  0.3.0-0,  0.2.0-0,  0.1.0-1,  0.1.0-0,  0.0.3-0,  0.0.2-0

depends bedtools:

>=2.31.0

depends bowtie2:

2.4.5

depends defopt:

>=6.4.0

depends dnaio:

>=1.2.0

depends gawk:

>=5.1.0

depends httpx:

>=0.24.1

depends minimap2:

>=2.26

depends platformdirs:

>=3.5.1

depends python:

>=3.10

depends samtools:

>=1.17

depends tqdm:

>=4.65.0

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 hostile

and update with::

   mamba update hostile

To create a new environment, run:

mamba create --name myenvname hostile

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/hostile:<tag>

(see `hostile/tags`_ for valid values for ``<tag>``)

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