recipe mameshiba

mameshiba installs only the dependencies needed to run MameShiba.

Homepage:

https://github.com/Sika-Zheng-Lab/Shiba

Documentation:

https://sika-zheng-lab.github.io/Shiba

License:

MIT / MIT

Recipe:

/mameshiba/meta.yaml

mameshiba is a minimal conda meta-package that installs all dependencies required for running MameShiba (https://github.com/Sika-Zheng-Lab/Shiba).

package mameshiba

versions:

0.6.1-0,  0.6.0-0

depends numexpr:

2.8.4

depends numpy:

1.26.4

depends pandas:

1.5.3

depends pysam:

0.23.0

depends python:

3.11.0.*

depends pyyaml:

6.0.2

depends regtools:

1.0.0

depends scanpy:

1.9.5

depends statsmodels:

0.13.5

depends stringtie:

3.0.0

depends subread:

2.0.8

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 mameshiba

and update with::

   mamba update mameshiba

To create a new environment, run:

mamba create --name myenvname mameshiba

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/mameshiba:<tag>

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

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