recipe connor

A command-line tool to deduplicate bam files based on custom, inline barcoding.

Homepage:

https://github.com/umich-brcf-bioinf/Connor

License:

Apache / Apache-2.0

Recipe:

/connor/meta.yaml

package connor

(downloads) docker_connor

versions:

0.6.1-2,  0.6.1-1,  0.6.1-0,  0.6-2,  0.6-0,  0.5.1-0

depends bcftools:

1.3.1.*

depends htslib:

1.3.1.*

depends pysam:

0.9.1.*

depends python:

depends samtools:

1.3.1.*

depends sortedcontainers:

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 connor

and update with::

   mamba update connor

To create a new environment, run:

mamba create --name myenvname connor

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/connor:<tag>

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