recipe pychopper

A tool to identify, orient and rescue full length cDNA reads from nanopore data.

Homepage:

https://github.com/epi2me-labs/pychopper

License:

Mozilla Public License 2.0

Recipe:

/pychopper/meta.yaml

package pychopper

versions:

2.7.10-0,  2.7.9-0,  2.5.0-0,  2.4.0-0,  2.3.1-1,  2.3.1-0,  2.3.0-0,  2.2.2-1,  2.2.2-0, 

2.7.10-0,  2.7.9-0,  2.5.0-0,  2.4.0-0,  2.3.1-1,  2.3.1-0,  2.3.0-0,  2.2.2-1,  2.2.2-0,  2.2.1-0,  2.2.0-1,  2.2.0-0,  2.1.0-0,  2.0.3-1,  2.0.3-0,  0.6.1-0,  0.5.0-0,  0.4.0-0

depends hmmer:

>=3.2

depends matplotlib-base:

depends numpy:

depends pandas:

depends parasail-python:

depends pysam:

depends python:

>=3

depends python-edlib:

depends seaborn:

depends six:

depends tqdm:

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 pychopper

and update with::

   mamba update pychopper

To create a new environment, run:

mamba create --name myenvname pychopper

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/pychopper:<tag>

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

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