Difference between revisions of "Swarm"

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[[Category:Software]][[Category:Data Science]]
 
{|<!--CONFIGURATION: REQUIRED-->
 
{|<!--CONFIGURATION: REQUIRED-->
 
|{{#vardefine:app|swarm}}
 
|{{#vardefine:app|swarm}}
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==Required Modules==
 
==Required Modules==
 
===Serial===
 
===Serial===
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* gcc/4.7.2
 
* {{#var:app}}
 
* {{#var:app}}
<!--
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===Parallel (OpenMP)===
 
* intel
 
* {{#var:app}}
 
===Parallel (MPI)===
 
* intel
 
* openmpi
 
* {{#var:app}}
 
-->
 
 
==System Variables==
 
==System Variables==
* HPC_{{#uppercase:{{#var:app}}}}_DIR
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* HPC_{{uc:{{#var:app}}}}_DIR
* HPC_{{#uppercase:{{#var:app}}}}_BIN
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* 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 website  

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