recipe dropseq_tools

Package for the analysis of Drop-seq data developed by Jim Nemesh in the McCarroll Lab

Homepage:

https://mccarrolllab.com/dropseq

Documentation:

https://github.com/broadinstitute/Drop-seq/blob/v3.0.2/README.md

Developer docs:

https://github.com/broadinstitute/Drop-seq

License:

MIT / MIT

Recipe:

/dropseq_tools/meta.yaml

package dropseq_tools

(downloads) docker_dropseq_tools

versions:
3.0.2-0,  3.0.1-0,  2.5.1-0,  2.5.0-0,  2.4.1-0,  2.4.0-1,  2.4.0-0,  2.3.0-0,  2.0.0-0, 

3.0.2-0,  3.0.1-0,  2.5.1-0,  2.5.0-0,  2.4.1-0,  2.4.0-1,  2.4.0-0,  2.3.0-0,  2.0.0-0,  1.13-0

depends openjdk:

>=21

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 dropseq_tools

and update with::

   mamba update dropseq_tools

To create a new environment, run:

mamba create --name myenvname dropseq_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/dropseq_tools:<tag>

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

Notes

Drop-seq_tools utilities are wrapper shell scripts. To get help on individual tool, use e.g. `PolyATrimmer -- --help`

Download stats

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/dropseq_tools/README.html)