UMGAP - Unipept Metagenomics Analysis Pipeline

The Unipept Metagenomics Analysis Pipeline can analyse metagenomic samples and return a frequency table of the taxons it detected for each read. It is based on the Unipept Metaproteomics Analysis Pipeline. Both tools were developed at the Department of Applied Maths, Computer science and Statistics at Ghent University.

Building

You will need Rust installed. The pipeline can then be installed by issuing the following commands:

git clone 'git@github.ugent.be:unipept/unipept-metagenomics-scripts.git' umgap
cd umgap
cargo install --path .

This will install the umgap command to ~/.cargo/bin by default. Please ensure this directory is in your $PATH.

Updating the pipeline

Your installed version of the pipeline can be updated by issuing

cargo install --force --path .

Running the pipeline

See umgap help or have a look at the short metagenomics casestudy at the Unipept website.

Contributing

Please use the RustFMT pre-push hook.

License