- recipe quast
Quality Assessment Tool for Genome Assemblies
- Homepage:
- License:
Custom
- Recipe:
- Links:
biotools: quast, doi: 10.1093/bioinformatics/btt086
- package quast¶
- versions:
5.2.0-4
,5.2.0-3
,5.2.0-2
,5.2.0-1
,5.2.0-0
,5.0.2-7
,5.0.2-6
,5.0.2-5
,5.0.2-4
,5.2.0-4
,5.2.0-3
,5.2.0-2
,5.2.0-1
,5.2.0-0
,5.0.2-7
,5.0.2-6
,5.0.2-5
,5.0.2-4
,5.0.2-3
,5.0.2-2
,5.0.2-1
,5.0.2-0
,5.0.1-0
,5.0.0-1
,5.0.0-0
,4.6.3-2
,4.6.3-1
,4.6.3-0
,4.6.1-0
,4.5-1
,4.4-1
,4.4-0
,4.3-2
,4.3-1
,4.1-1
,4.1-0
,3.2-1
- depends bedtools:
- depends blast:
>=2.15.0,<2.16.0a0
- depends bwa:
- depends circos:
- depends glimmerhmm:
- depends joblib:
- depends libgcc-ng:
>=12
- depends libstdcxx-ng:
>=12
- depends libzlib:
>=1.2.13,<2.0a0
- depends matplotlib-base:
- depends minimap2:
>=2.10
- depends minimap2:
>=2.28,<3.0a0
- depends openjdk:
>=8
- depends perl:
>=5.32.1,<5.33.0a0 *_perl5
- depends python:
>=3.10,<3.11.0a0
- depends python_abi:
3.10.* *_cp310
- depends simplejson:
- 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 quast and update with:: mamba update quast
To create a new environment, run:
mamba create --name myenvname quast
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/quast:<tag> (see `quast/tags`_ for valid values for ``<tag>``)
Notes¶
- GeneMark gene prediction software is disabled due to licensing issues
Download stats¶
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/quast/README.html)