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metalaffa website  

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)

Environment Modules

Run module spider metalaffa to find out what environment modules are available for this application.

System Variables

  • HPC_METALAFFA_DIR - installation directory
  • HPC_METALAFFA_BIN - executable directory