Swarm: Difference between revisions
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[[Category:Software]][[Category:Data | [[Category:Software]][[Category:Data Science]] | ||
{|<!--CONFIGURATION: REQUIRED--> | {|<!--CONFIGURATION: REQUIRED--> | ||
|{{#vardefine:app|swarm}} | |{{#vardefine:app|swarm}} | ||
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==System Variables== | ==System Variables== | ||
* HPC_{{ | * HPC_{{uc:{{#var:app}}}}_DIR | ||
* HPC_{{ | * HPC_{{uc:{{#var:app}}}}_BIN | ||
<!--Configuration--> | <!--Configuration--> | ||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
Latest revision as of 16:49, 21 August 2022
Description
Swarm us a robust and fast clustering method for amplicon-based studies. The purpose of swarm is to provide a novel clustering algorithm to handle large sets of amplicons. Traditional clustering algorithms results are strongly input-order dependent, and rely on an arbitrary global clustering threshold. swarm results are resilient to input-order changes and rely on a small local linking threshold d, the maximum number of differences between two amplicons. swarm forms stable high-resolution clusters, with a high yield of biological information.
Required Modules
Serial
- gcc/4.7.2
- swarm
System Variables
- HPC_SWARM_DIR
- HPC_SWARM_BIN