recipe liftoff

An accurate GFF3/GTF lift over pipeline

Homepage:

https://github.com/agshumate/Liftoff

License:

GPL / GPL-3 License

Recipe:

/liftoff/meta.yaml

package liftoff

versions:

1.6.3-1,  1.6.3-0,  1.6.2-0,  1.6.1-0,  1.6.0-1,  1.6.0-0,  1.5.2-0,  1.5.1-0,  1.5.0-0, 

1.6.3-1,  1.6.3-0,  1.6.2-0,  1.6.1-0,  1.6.0-1,  1.6.0-0,  1.5.2-0,  1.5.1-0,  1.5.0-0,  1.4.2-0,  1.4.1-0,  1.3.0-0

depends biopython:

>=1.76

depends gffutils:

>=0.10.1

depends interlap:

>=0.2.6

depends minimap2:

2.24

depends networkx:

>=2.4

depends numpy:

>=1.21.0

depends parasail-python:

>=1.2.1

depends pyfaidx:

>=0.5.8

depends pysam:

>=0.16.0.1

depends python:

>=3

depends ujson:

>=3.2.0

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 liftoff

and update with::

   mamba update liftoff

To create a new environment, run:

mamba create --name myenvname liftoff

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/liftoff:<tag>

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

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Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/liftoff/README.html)