recipe samhaplotag

Processes haplotag barcodes in SAM format.

Homepage:

https://github.com/wtsi-hpag/SamHaplotag

License:

MIT / MIT

Recipe:

/samhaplotag/meta.yaml

Converts BC/QT barcode SAM tags into haplotag RX, QX and BX tags. Also contains a tool for converting barcodes from haplotag to 10x in fastq format.

package samhaplotag

(downloads) docker_samhaplotag

versions:

0.0.4-4,  0.0.4-3,  0.0.4-2,  0.0.4-1,  0.0.4-0,  0.0.3-0,  0.0.2-0,  0.0.1-0

depends libgcc:

>=13

depends libstdcxx:

>=13

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 samhaplotag

and update with::

   mamba update samhaplotag

To create a new environment, run:

mamba create --name myenvname samhaplotag

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/samhaplotag:<tag>

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

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Link to this page

Render an install-with-bioconda 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/samhaplotag/README.html)