- recipe syngap
SynGAP: Synteny-based Gene structure Annotation Polisher
- Homepage:
- License:
CC-BY-NC-SA-4.0
- Recipe:
- package syngap¶
- versions:
1.2.5-0,1.2.4-0,1.2.3-1,1.2.3-0,1.2.2-0,1.1.1-1,1.1.1-0,1.1.0-0,1.0.1-0,1.2.5-0,1.2.4-0,1.2.3-1,1.2.3-0,1.2.2-0,1.1.1-1,1.1.1-0,1.1.0-0,1.0.1-0,1.0.0-0- depends bedtools:
>=2.31.0- depends biopython:
>=1.81- depends crossmap:
- depends deap:
>=1.4.1- depends diamond:
>=2.1.8- depends emboss:
>=6.6.0- depends gffread:
>=0.12.7- depends graphviz:
- depends jcvi:
>=1.3.6- depends kneed:
>=0.8.3- depends last:
>=1454- depends matplotlib-base:
>=3.8.0- depends more-itertools:
- depends numpy:
>=1.26.0- depends ortools-python:
- depends pandas:
>=2.1.1- depends perl-bioperl:
>=1.7.8- depends pybedtools:
>=0.9.0- depends python:
>=3.10- depends scikit-image:
>=0.22.0- depends seqkit:
>=2.4.0- depends webcolors:
- 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 syngap and update with:: mamba update syngap
To create a new environment, run:
mamba create --name myenvname syngap
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/syngap:<tag> (see `syngap/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/syngap/README.html)
