Difference between revisions of "Sourmash"
Jump to navigation
Jump to search
(Created page with "Category:Software {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|sourmash}} |{{#vardefine:url|https://github.com/dib-lab/sourmash}} <!--CONFIGURATION: OPTIONAL (|1}} m...") |
|||
| (3 intermediate revisions by 2 users not shown) | |||
| Line 1: | Line 1: | ||
| − | [[Category:Software]] | + | [[Category:Software]][[Category:Phylogenetics]] |
{|<!--CONFIGURATION: REQUIRED--> | {|<!--CONFIGURATION: REQUIRED--> | ||
|{{#vardefine:app|sourmash}} | |{{#vardefine:app|sourmash}} | ||
| Line 10: | Line 10: | ||
|{{#vardefine:testing|}} <!--PROFILING--> | |{{#vardefine:testing|}} <!--PROFILING--> | ||
|{{#vardefine:faq|}} <!--FAQ--> | |{{#vardefine:faq|}} <!--FAQ--> | ||
| − | |{{#vardefine:citation|}} <!--CITATION--> | + | |{{#vardefine:citation|1}} <!--CITATION--> |
|{{#vardefine:installation|}} <!--INSTALLATION--> | |{{#vardefine:installation|}} <!--INSTALLATION--> | ||
|} | |} | ||
| Line 24: | Line 24: | ||
Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | 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 |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_BIN - executable directory |
<!--Configuration--> | <!--Configuration--> | ||
| Line 60: | Line 60: | ||
If you publish research that uses {{#var:app}} you have to cite it as follows: | If you publish research that uses {{#var:app}} you have to cite it as follows: | ||
| − | + | [http://joss.theoj.org/papers/10.21105/joss.00027 Sourmash 1.0 is published on JOSS; please cite that paper if you use (doi: 10.21105/joss.00027):.] | |
|}} | |}} | ||
Latest revision as of 15:45, 22 August 2022
Description
Compute and compare MinHash signatures for DNA data sets.
Environment Modules
Run module spider sourmash to find out what environment modules are available for this application.
System Variables
- HPC_SOURMASH_DIR - installation directory
- HPC_SOURMASH_BIN - executable directory
Citation
If you publish research that uses sourmash you have to cite it as follows:
Sourmash 1.0 is published on JOSS; please cite that paper if you use (doi: 10.21105/joss.00027):.