- recipe yleaf
Yleaf - A tool for Y-chromosome haplogroup prediction
- Homepage:
- Documentation:
- License:
MIT / MIT
- Recipe:
Yleaf is a tool for Y-chromosome haplogroup prediction from next-generation sequencing data. It provides a comprehensive solution for analyzing Y-chromosome genetic data and determining haplogroup assignments.
- package yleaf¶
- versions:
3.2.1-0- depends graphviz:
>=2.40- depends networkx:
>=2.6- depends numpy:
- depends pandas:
>=1.3- depends pip:
- depends python:
- depends python-dateutil:
>=2.8- depends pytz:
>=2021- depends six:
>=1.16- 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 yleaf and update with:: mamba update yleaf
To create a new environment, run:
mamba create --name myenvname yleaf
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/yleaf:<tag> (see `yleaf/tags`_ for valid values for ``<tag>``)
Notes¶
Yleaf requires reference genome files for analysis. These will be downloaded automatically when needed, or you can specify their location in the config.txt file.
- Basic usage:
Yleaf -fastq input.fastq -rg hg38 -o output_dir
- For more information, see the documentation at:
https://github.com/genid/Yleaf
Download stats¶
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/yleaf/README.html)
