recipe vitap

Viral Taxonomic Assignment Pipeline

Homepage:

https://github.com/DrKaiyangZheng/VITAP/

Documentation:

https://github.com/DrKaiyangZheng/VITAP/blob/main/README.md

License:

GPL / GPL-3.0-only

Recipe:

/vitap/meta.yaml

Viral Taxonomic Assignment Pipeline (VITAP) is a cutting-edge tool designed to address the growing need for accurate and comprehensive taxonomic assignments of DNA and RNA viral sequences based on ICTV VMR and UniRef90.

package vitap

versions:

1.10-0,  1.7.1-0,  1.7-1,  1.7-0,  1.5-0,  1.2-0,  1.1-0

depends biopython:

>=1.78

depends diamond:

2.1.16.*

depends entrez-direct:

>=16.2

depends pandas:

>=1.5

depends polars:

>=0.19

depends pyarrow:

>=10

depends pyrodigal:

>=3.6

depends python:

depends seqkit:

depends taxonkit:

depends tqdm:

>=4.65.0

depends wget:

requirements:

additional platforms:

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 vitap

and update with::

   mamba update vitap

To create a new environment, run:

mamba create --name myenvname vitap

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/vitap:<tag>

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

Download stats

Link to this page

Render an badge with the following MarkDown:

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