Difference between revisions of "SPAdes"

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[[Category:Software]][[Category:Biology]][[Category:Bioinformatics]][[Category:Software]]
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[[Category:Software]][[Category:Biology]][[Category:NGS]]
 
{|<!--CONFIGURATION: REQUIRED-->
 
{|<!--CONFIGURATION: REQUIRED-->
 
|{{#vardefine:app|spades}}
 
|{{#vardefine:app|spades}}

Latest revision as of 15:47, 22 August 2022

Description

spades website  

St. Petersburg genome assembler

Environment Modules

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

System Variables

  • HPC_SPADES_DIR - installation directory
  • HPC_SPADES_BIN - executable directory

Additional Information

Spades Manual

You can create a personal phyluce config in ~/.phyluce.conf. It's mostly used to set trinity or spades memory with something like

[trinity]
max_memory:8G
kmer_coverage:2

[spades]
max_memory:6G
cov_cutoff:5