- recipe phigaro
Phigaro is a scalable command-line tool for predicting phages and prophages.
- Homepage:
- Documentation:
- License:
MIT / MIT
- Recipe:
Phigaro is a standalone command-line application that is able to detect prophage regions taking raw genome and metagenome assemblies as an input. It also produces dynamic annotated “prophage genome maps” and marks possible transposon insertion spots inside prophages. It is applicable for mining prophage regions from large metagenomic datasets.
- package phigaro¶
- versions:
2.4.0-0,2.3.0-1,2.3.0-0,2.2.6-0- depends beautifulsoup4:
>=4.4.0- depends biopython:
- depends bs4:
- depends future:
- depends hmmer:
- depends lxml:
- depends numpy:
- depends pandas:
>=0.23.4- depends plotly:
- depends prodigal:
- depends python:
>=3.6,<=3.11.7- depends pyyaml:
>=5.1- depends sh:
- depends six:
>=1.7.0- 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 phigaro and update with:: mamba update phigaro
To create a new environment, run:
mamba create --name myenvname phigaro
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/phigaro:<tag> (see `phigaro/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/phigaro/README.html)
