recipe isonclust3

De novo clustering of long transcript reads into genes

Homepage:

https://github.com/aljpetri/isONclust3

License:

GPL-3.0-or-later

Recipe:

/isonclust3/meta.yaml

isONclust3 is a tool for clustering either PacBio Iso-Seq reads, or Oxford Nanopore reads into clusters, where each cluster represents all reads that came from a gene family. Output is a tsv file with each read assigned to a cluster-ID and a folder 'fastq' containing one fastq file per cluster generated. Detailed information is available in the isONclust3 paper https://doi.org/10.1093/bioinformatics/btaf207

package isonclust3

(downloads) docker_isonclust3

versions:

0.3.0-0

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 isonclust3

and update with::

   mamba update isonclust3

To create a new environment, run:

mamba create --name myenvname isonclust3

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/isonclust3:<tag>

(see `isonclust3/tags`_ for valid values for ``<tag>``)

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