recipe mimsi

A Deep Mulitple Instance Learning Classifier for Microsatellite Instability

Homepage:

https://github.com/mskcc/mimsi

License:

GNU GPL v3.0

Recipe:

/mimsi/meta.yaml

package mimsi

versions:

0.4.4-0,  0.4.3-0

depends matplotlib-base:

depends nose:

>=1.3.7

depends numpy:

depends pandas:

depends pysam:

depends python:

>=3.6,<3.9

depends pytorch:

depends scikit-learn:

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 mimsi

and update with::

   mamba update mimsi

To create a new environment, run:

mamba create --name myenvname mimsi

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/mimsi:<tag>

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

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