recipe hivtrace

HIV TRACE is an application that identifies potential transmission clusters within a supplied FASTA file with an option to find potential links against the Los Alamos HIV Sequence Database.

Homepage:

https://github.com/veg/hivtrace

License:

MIT

Recipe:

/hivtrace/meta.yaml

package hivtrace

(downloads) docker_hivtrace

versions:

1.5.0-0,  0.5.0-0,  0.1.6-0

depends biopython:

>=1.58

depends python:

>=3

depends python-bioext:

>=0.19.7

depends python-hivclustering:

depends python-hppy:

>=0.9.8

depends python-hyphy-python:

>=0.1.6

depends tornado:

>=4.3

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 hivtrace

and update with::

   mamba update hivtrace

To create a new environment, run:

mamba create --name myenvname hivtrace

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/hivtrace:<tag>

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

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Link to this page

Render an install-with-bioconda 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/hivtrace/README.html)