Scoary: Difference between revisions
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Created page with "Category:SoftwareCategory:BiologyCategory:BioinformaticsCategory:Genomics {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|scoary}} |{{#vardefine:url|https:/..." |
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[[Category:Software]][[Category: | [[Category:Software]][[Category:Phylogenetics]] | ||
{|<!--CONFIGURATION: REQUIRED--> | {|<!--CONFIGURATION: REQUIRED--> | ||
|{{#vardefine:app|scoary}} | |{{#vardefine:app|scoary}} | ||
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<!--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 22:10, 21 August 2022
Description
Scoary is designed to take the gene_presence_absence.csv file from Roary as well as a traits file created by the user and calculate the assocations between all genes in the accessory genome and the traits. It reports a list of genes sorted by strength of association per trait.
Environment Modules
Run module spider scoary to find out what environment modules are available for this application.
System Variables
- HPC_SCOARY_DIR - installation directory
Citation
If you publish research that uses scoary you have to cite it as follows: