recipe machina

Metastatic And Clonal History INtegrative Analysis

Homepage:

https://github.com/raphael-group/machina

License:

BSD-3

Recipe:

/machina/meta.yaml

MACHINA is a computational framework for inferring migration patterns between a primary tumor and metastases using DNA sequencing data.

package machina

(downloads) docker_machina

versions:

1.2-71.2-61.2-51.2-41.2-31.2-21.2-11.2-0

depends boost-cpp:

>=1.78.0,<1.78.1.0a0

depends glpk:

depends lemon:

>=1.3.1,<1.3.2.0a0

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.2.13,<1.3.0a0

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 machina

and update with::

   mamba update machina

To create a new environment, run:

mamba create --name myenvname machina

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/machina:<tag>

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

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