recipe mirmachine

A command line to tool detect miRNA homologs in genome sequences.

Homepage:

https://github.com/sinanugur/MirMachine

Documentation:

https://github.com/sinanugur/MirMachine/blob/master/README.md

License:

MIT / MIT

Recipe:

/mirmachine/meta.yaml

package mirmachine

versions:

0.2.13-0,  0.2.12-0,  0.2.11.2022-0,  0.2.11.2-0,  0.2.11.1-0,  0.2.11-1,  0.2.11-0,  0.2.10-0,  0.1.31-0, 

0.2.13-0,  0.2.12-0,  0.2.11.2022-0,  0.2.11.2-0,  0.2.11.1-0,  0.2.11-1,  0.2.11-0,  0.2.10-0,  0.1.31-0,  0.1.2-0

depends appdirs:

>=1.4.3

depends attrs:

>=19.3.0

depends bedtools:

>=2.29.2

depends biopython:

>=1.76

depends configargparse:

>=1.1

depends coreutils:

>=8.31

depends datrie:

depends decorator:

>=4.4.2

depends docopt:

>=0.6.2

depends docutils:

>=0.16

depends gawk:

>=5.0.1

depends gitdb:

>=4.0.2

depends gitpython:

>=3.1.0

depends importlib-metadata:

>=1.5.0

depends infernal:

1.1.2

depends jsonschema:

>=3.2.0

depends moreutils:

>=0.5.7

depends nbformat:

>=5.0.4

depends numpy:

>=1.18

depends psutil:

>=5.7.0

depends pyrsistent:

>=0.15.7

depends python:

depends python-newick:

>=1.0.0

depends pyyaml:

depends ratelimiter:

depends rich:

>=10.16.1

depends samtools:

>=1.6

depends smmap:

>=3.0.1

depends snakemake-minimal:

>=5.11.1

depends toposort:

>=1.5

depends traitlets:

>=4.3.3

depends wrapt:

>=1.12.1

depends zipp:

>=3.1.0

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 mirmachine

and update with::

   mamba update mirmachine

To create a new environment, run:

mamba create --name myenvname mirmachine

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/mirmachine:<tag>

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

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