recipe rcorrector

Rcorrector (RNA-seq error CORRECTOR) is a kmer-based error correction method for RNA-seq data. Rcorrector can also be applied to other type of sequencing data where the read coverage is non-uniform, such as single-cell sequencing.

Homepage:

https://github.com/mourisl/Rcorrector/

License:

GPL3 / GPL-3.0-only

Recipe:

/rcorrector/meta.yaml

Links:

doi: 10.1186/s13742-015-0089-y, biotools: rcorrector

package rcorrector

(downloads) docker_rcorrector

versions:
1.0.7-1,  1.0.7-0,  1.0.6-0,  1.0.5-1,  1.0.5-0,  1.0.4-3,  1.0.4-2,  1.0.4-1,  1.0.4-0, 

1.0.7-1,  1.0.7-0,  1.0.6-0,  1.0.5-1,  1.0.5-0,  1.0.4-3,  1.0.4-2,  1.0.4-1,  1.0.4-0,  1.0.3.1-1,  1.0.3.1-0,  1.0.3-2,  1.0.3-1,  1.0.3-0,  1.0.2-2,  1.0.2-1,  1.0.2-0

depends kmer-jellyfish:

2.*

depends kmer-jellyfish:

>=2.3.1,<3.0a0

depends libgcc:

>=13

depends libstdcxx:

>=13

depends libzlib:

>=1.3.1,<2.0a0

depends perl:

depends zlib:

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 rcorrector

and update with::

   mamba update rcorrector

To create a new environment, run:

mamba create --name myenvname rcorrector

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/rcorrector:<tag>

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

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Link to this page

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