MetaLAFFA is a pipeline for annotating shotgun metagenomic data with abundances of functional orthology groups. This process consists of several steps to go from raw FASTQs (with sequencing adapters removed) to functional profiles:
Host read filtering (e.g. removing human DNA) Duplicate read filtering Quality trimming and filtering Mapping reads to genes Mapping genes to functional orthology groups (e.g. KOs) Aggregating orthologs into higher-level groupings (e.g. pathways)
module spider metalaffa to find out what environment modules are available for this application.
- HPC_METALAFFA_DIR - installation directory
- HPC_METALAFFA_BIN - executable directory