- recipe orthologer
Establish orthology among fasta files.
- Homepage:
- Documentation:
- Developer docs:
- License:
GPL3 / GPL3
- Recipe:
- Links:
biotools: orthologer, doi: 10.1093/nar/gkac996, PMID: 36350662
Map genes to OrthoDB as well as finding orthology among a set of fasta files.
- package orthologer¶
- versions:
3.5.0-0,3.4.2-0,3.4.1-0,3.4.0-0,3.3.2-0,3.3.1-0- depends _openmp_mutex:
>=4.5- depends bash:
>=4.1- depends biopython:
- depends blast:
- depends busco:
>=5.7.0- depends cd-hit:
- depends diamond:
- depends libgcc:
>=12- depends libgomp:
- depends libstdcxx:
>=12- depends mmseqs2:
- depends numpy:
- depends python:
>=3.4- depends rsync:
- depends wget:
- 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 orthologer and update with:: mamba update orthologer
To create a new environment, run:
mamba create --name myenvname orthologer
with
myenvnamebeing 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/orthologer:<tag> (see `orthologer/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/orthologer/README.html)
