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minia website  

GATB-Minia-Pipeline is a de novo assembly pipeline for Illumina data. It can assemble genomes and metagenomes.

It is multi-k, to aim for high contiguity. Similar software: MEGAHIT, metaSPAdes.

The pipeline consists of:

  • Bloocoo (error correction)
  • Minia 3 (contigs assembly) based on the BCALM2 (unitigs assembly) tool
  • BESST (scaffolding)

Environment Modules

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

System Variables

  • HPC_MINIA_DIR - installation directory
  • HPC_MINIA_BIN - executable directory