recipe pecat

A phased error correction and assembly tool

Homepage:

https://github.com/lemene/PECAT

License:

BSD-2-Clause

Recipe:

/pecat/meta.yaml

package pecat

versions:

0.0.3-1,  0.0.3-0,  0.0.2-1,  0.0.2-0,  0.0.1-1,  0.0.1-0

depends libgcc:

depends libgcc-ng:

>=12

depends libstdcxx:

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.3.1,<2.0a0

depends minimap2:

>=2.17

depends perl:

>=5.26.2

depends python:

>=3.6

depends racon:

>=1.4.3

depends samtools:

>=1.17

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 pecat

and update with::

   mamba update pecat

To create a new environment, run:

mamba create --name myenvname pecat

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/pecat:<tag>

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

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Link to this page

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