Difference between revisions of "Minia"

From UFRC
Jump to navigation Jump to search
 
Line 1: Line 1:
[[Category:Software]][[Category:Phylogenomics‏‎]][[Category:Biology]]
+
[[Category:Software]][[Category:genomics‏‎]][[Category:Biology]]
 
{|<!--CONFIGURATION: REQUIRED-->
 
{|<!--CONFIGURATION: REQUIRED-->
 
|{{#vardefine:app|minia}}
 
|{{#vardefine:app|minia}}

Latest revision as of 13:31, 15 August 2022

Description

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