recipe imfusion/0.3.2

IM-Fusion - Tool for identifying transposon insertions and their effects from RNA-sequencing data

Homepage:

https://github.com/jrderuiter/imfusion

License:

MIT

Recipe:

/imfusion/0.3.2/meta.yaml

package imfusion

versions:

0.3.2-0,  0.3.0-0

depends bowtie:

depends future:

depends htseq:

>=0.7.2

depends htslib:

<1.4

depends intervaltree:

depends intervaltree:

depends matplotlib:

depends numexpr:

depends pandas:

depends pathlib2:

depends pyfaidx:

>=0.4.8.1

depends pysam:

>=0.9.1

depends python:

2.7*

depends scipy:

depends seaborn:

depends seaborn:

depends star:

depends stringtie:

depends subread:

depends toolz:

depends tophat:

>=2.1.0

depends typing:

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 imfusion

and update with::

   mamba update imfusion

To create a new environment, run:

mamba create --name myenvname imfusion

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/imfusion:<tag>

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

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