recipe fgbio-minimal

A set of tools for working with genomic and high throughput sequencing data, including UMIs

Homepage:

https://github.com/fulcrumgenomics/fgbio

License:

MIT / MIT

Recipe:

/fgbio-minimal/meta.yaml

A set of tools for working with genomic and high throughput sequencing data, including UMIs. The 'fgbio-minimal' package offers an installation of fgbio without the 'r-base' dependency.

package fgbio-minimal

(downloads) docker_fgbio-minimal

versions:
2.4.0-0,  2.3.0-0,  2.2.1-0,  2.2.0-0,  2.1.0-0,  2.0.2-0,  2.0.1-0,  2.0.0-0,  1.5.1-0, 

2.4.0-0,  2.3.0-0,  2.2.1-0,  2.2.0-0,  2.1.0-0,  2.0.2-0,  2.0.1-0,  2.0.0-0,  1.5.1-0,  1.5.0-0

depends openjdk:

>=8

depends python:

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 fgbio-minimal

and update with::

   mamba update fgbio-minimal

To create a new environment, run:

mamba create --name myenvname fgbio-minimal

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/fgbio-minimal:<tag>

(see `fgbio-minimal/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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