recipe psosp

PSOSP (Prophage SOS-dependency Predictor)

Homepage:

https://github.com/mujiezhang/PSOSP

Documentation:

https://github.com/mujiezhang/PSOSP/blob/main/README.md

License:

MIT / MIT

Recipe:

/psosp/meta.yaml

PSOSP (Prophage SOS-dependency Predictor) is a novel bioinformatics tool to predict prophage induction modes by analyzing the heterology index (HI) of LexA protein binding to target DNA, classifying prophages into SOS-dependent (SdPs) and SOS-independent (SiPs).

package psosp

(downloads) docker_psosp

versions:

1.1.2-2,  1.1.2-1,  1.1.2-0,  1.1.1-0,  1.1.0-0

depends biopython:

depends checkv:

>=1.0.3

depends diamond:

>=2.0.4

depends meme:

>=5.5.5

depends prodigal:

depends python:

>=3.10

depends scikit-learn:

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 psosp

and update with::

   mamba update psosp

To create a new environment, run:

mamba create --name myenvname psosp

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/psosp:<tag>

(see `psosp/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/psosp/README.html)