Throw a bunch of annotation tools and pipelines at your bins (MAGs).
This is the version of the pipeline as it was used for the paper. Some data outputs weren't used and have been disabled.
This pipeline requires a lot of disk space for its reference databases (~200GB)
- Install the latest version of a conda distribution and Snakemake (>=5.10)
- Clone this repository (paper branch)
- Copy the bins into the
inputfolder (ending in
- Run the
paperrule with conda enabled
conda create -y -n snake -c bioconda -c conda-forge snakemake>=5.10 conda activate snake git clone -b paper https://github.com/KnuttPipeline/KnuttBinAnno.git cd KnuttBinAnno snakemake -prj 16 --use-conda paper 2>&1 | tee run.log # Run with 16 cores available