- recipe vsnp3
Rapidly call, validate, and compare SNPs from FASTQ files in a timely manner utilizing large data sets.
- Homepage:
- License:
GPL3
- Recipe:
- package vsnp3¶
- versions:
3.20-0,3.19-0,3.18-0,3.17-0,3.16-0,3.15-0,3.14-0,3.13-0,3.12-0,3.20-0,3.19-0,3.18-0,3.17-0,3.16-0,3.15-0,3.14-0,3.13-0,3.12-0,3.11-0,3.10-0,3.09-0,3.08-0,3.07-0,3.06-0,3.05-0,3.04-0,3.02-0,3.01-0- depends bcftools:
- depends biopython:
>=1.79- depends bwa:
- depends cairosvg:
>=2.5.2- depends dask:
>=2022.01.1- depends freebayes:
>=1.3.5- depends humanize:
>=3.14.0- depends minimap2:
>=2.24- depends numpy:
- depends openpyxl:
>=3.0.9- depends pandas:
- depends parallel:
- depends pigz:
- depends py-cpuinfo:
- depends python:
>=3.8,<3.10- depends raxml:
>=8.2.12- depends regex:
>=2.5.110- depends samtools:
>=1.14- depends seqkit:
>=2.1.0- depends sourmash:
>=4.2.4- depends spades:
>=3.15.2- depends svgwrite:
>=1.4.1- depends vcflib:
1.0.1.*- depends vcftools:
0.1.16.*- depends xlsxwriter:
>=3.0.2- 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 vsnp3 and update with:: mamba update vsnp3
To create a new environment, run:
mamba create --name myenvname vsnp3
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/vsnp3:<tag> (see `vsnp3/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/vsnp3/README.html)
