recipe hifi_trimmer

hifi_trimmer is a tool for filtering and trimming extraneous adapter hits from a HiFi read set using a BLAST search.

Homepage:

https://github.com/sanger-tol/hifi-trimmer

License:

MIT

Recipe:

/hifi_trimmer/meta.yaml

package hifi_trimmer

versions:

1.2.2-0

depends click:

>=8.1.8

depends polars:

>=1.23.0

depends py-bgzip:

>=0.5.0

depends pysam:

>=0.23.0

depends python:

>=3.10,<3.13

depends pyyaml:

>=6.0.2

requirements:

additional platforms:

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 hifi_trimmer

and update with::

   mamba update hifi_trimmer

To create a new environment, run:

mamba create --name myenvname hifi_trimmer

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/hifi_trimmer:<tag>

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

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Link to this page

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