recipe umi_tools

Tools for dealing with Unique Molecular Identifiers (UMIs) / Random Molecular Tags (RMTs).

Homepage:

https://github.com/CGATOxford/UMI-tools

Documentation:

https://umi-tools.readthedocs.io/en/latest

License:

MIT / MIT

Recipe:

/umi_tools/meta.yaml

Links:

doi: 10.1101/gr.209601.116, usegalaxy-eu: umi_tools_count, usegalaxy-eu: umi_tools_extract, usegalaxy-eu: umi_tools_group, usegalaxy-eu: umi_tools_whitelist, usegalaxy-eu: umi_tools_dedup

package umi_tools

versions:

1.1.5-3,  1.1.5-2,  1.1.5-1,  1.1.5-0,  1.1.4-2,  1.1.4-1,  1.1.4-0,  1.1.3-0,  1.1.2-1, 

1.1.5-3,  1.1.5-2,  1.1.5-1,  1.1.5-0,  1.1.4-2,  1.1.4-1,  1.1.4-0,  1.1.3-0,  1.1.2-1,  1.1.2-0,  1.1.1-2,  1.1.1-1,  1.1.0-0,  1.0.1-2,  1.0.1-1,  1.0.1-0,  1.0.0-1,  1.0.0-0,  0.5.5-1,  0.5.5-0,  0.5.4-3,  0.5.4-2,  0.5.4-1,  0.5.4-0,  0.5.3-1,  0.5.3-0,  0.5.2-0,  0.5.1-0,  0.5.0-0,  0.4.4-0,  0.4.3-0,  0.2.3-2,  0.2.3-1,  0.2.3-0

depends future:

depends libgcc-ng:

>=12

depends matplotlib-base:

depends numpy:

>=1.7

depends pandas:

>=0.12.0

depends pybktree:

depends pysam:

>=0.16.0.1

depends python:

>=3.10,<3.11.0a0

depends python_abi:

3.10.* *_cp310

depends regex:

depends scipy:

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 umi_tools

and update with::

   mamba update umi_tools

To create a new environment, run:

mamba create --name myenvname umi_tools

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/umi_tools:<tag>

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

Download stats

Link to this page

Render an 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/umi_tools/README.html)