Difference between revisions of "Swarm"
Jump to navigation
Jump to search
(Created page with "Category:SoftwareCategory:Data Analysis {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|swarm}} |{{#vardefine:url|https://github.com/torognes/swarm}} <!--CONFIGURAT...") |
|||
| (5 intermediate revisions by 3 users not shown) | |||
| Line 1: | Line 1: | ||
| − | [[Category:Software]][[Category:Data | + | [[Category:Software]][[Category:Data Science]] |
{|<!--CONFIGURATION: REQUIRED--> | {|<!--CONFIGURATION: REQUIRED--> | ||
|{{#vardefine:app|swarm}} | |{{#vardefine:app|swarm}} | ||
| Line 22: | Line 22: | ||
==Required Modules== | ==Required Modules== | ||
===Serial=== | ===Serial=== | ||
| + | * gcc/4.7.2 | ||
* {{#var:app}} | * {{#var:app}} | ||
| − | + | ||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
==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