recipe instrain

Calculation of strain-level metrics

Homepage:

https://github.com/MrOlm/inStrain

License:

MIT / MIT

Recipe:

/instrain/meta.yaml

package instrain

(downloads) docker_instrain

versions:
1.9.0-0,  1.8.1-0,  1.8.0-0,  1.7.6-0,  1.7.5-0,  1.7.1-1,  1.7.1-0,  1.7.0-0,  1.6.4-0, 

1.9.0-0,  1.8.1-0,  1.8.0-0,  1.7.6-0,  1.7.5-0,  1.7.1-1,  1.7.1-0,  1.7.0-0,  1.6.4-0,  1.6.3-0,  1.6.2-0,  1.6.1-0,  1.6.0-0,  1.5.7-0,  1.5.5-0,  1.5.4-0,  1.5.3-0,  1.5.2-0,  1.5.1-0,  1.4.0-0,  1.3.11-0,  1.3.9-0,  1.3.8-0,  1.3.7-0,  1.3.6-0,  1.3.5-0,  1.3.4-0,  1.3.1-1,  1.3.1-0,  1.2.14-0,  1.2.13-0,  1.2.12-0,  1.2.10-0,  1.2.9-0,  1.2.8-0,  1.2.7-0,  1.2.4-0,  1.2.3-0,  1.2.2-0

depends biopython:

<=1.74

depends h5py:

depends lmfit:

depends matplotlib-base:

depends networkx:

depends numpy:

depends pandas:

>=0.25,!=1.1.3

depends psutil:

depends pysam:

>=0.15

depends pytest:

depends python:

>=3.4

depends seaborn:

depends tqdm:

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 instrain

and update with::

   mamba update instrain

To create a new environment, run:

mamba create --name myenvname instrain

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/instrain:<tag>

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

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/instrain/README.html)