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Revision as of 17:50, 6 June 2022
Description
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