Create entire NGS pipelines with one command
- Developer docs
GPL3 / GNU General Public v3 or later (GPLv3+)
YMP allows composing complex NGS data analysis workflows from conceptual building blocks ("stages") using a single command line statement. Pre-tested conda environments are installed on-the fly, reference databases downloaded as needed and requested workflows executed using Snakemake.
With YMP, developing new pipelines or testing alternative approaches using differnt tools or optimizing parameters becomes easy. Results from previous results are reused where possible. The collection of stages included with YMP is can be extended with project specific YMP stage definitions or simple Snakefiles.
- Required By
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install ymp
and update with:
conda update ymp
or use the docker container:
docker pull quay.io/biocontainers/ymp:<tag>
(see ymp/tags for valid values for