Difference between revisions of "GramCluster"
Jump to navigation
Jump to search
(Created page with "Category:SoftwareCategory:BiologyCategory:Sequencing {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|gramcluster}} |{{#vardefine:url|http://bioinfo.unl.edu/gram...") |
|||
| (2 intermediate revisions by 2 users not shown) | |||
| Line 21: | Line 21: | ||
<!--Modules--> | <!--Modules--> | ||
| − | == | + | ==Environment Modules== |
| − | + | Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | |
| − | |||
| − | |||
| − | < | ||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
==System Variables== | ==System Variables== | ||
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory |
<!--Configuration--> | <!--Configuration--> | ||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
Latest revision as of 16:57, 10 June 2022
Description
GramCluster is a fast and accurate progressive clustering algorithm that relies on a grammar-based sequence distance and is particularly useful in clustering large datasets.
Environment Modules
Run module spider gramcluster to find out what environment modules are available for this application.
System Variables
- HPC_GRAMCLUSTER_DIR - installation directory
Citation
If you publish research that uses gramcluster you have to cite it as follows:
A grammar-based distance metric enables fast and accurate clustering of large sets of 16S sequences D. J. Russell, S. F. Way, A. K. Benson, and K. Sayood BMC Bioinformatics 2010, 11:601