SALSA: Difference between revisions
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Moskalenko (talk | contribs) Created page with "Category:SoftwareCategory:Biology {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|salsa}} |{{#vardefine:url|https://github.com/machinegun/SALSA}} <!--CONFIGURATION:..." |
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[[Category:Software]][[Category:Biology]] | [[Category:Software]][[Category:Biology]][[Category:NGS]] | ||
{|<!--CONFIGURATION: REQUIRED--> | {|<!--CONFIGURATION: REQUIRED--> | ||
|{{#vardefine:app|salsa}} | |{{#vardefine:app|salsa}} | ||
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|{{#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--> | ||
|} | |} | ||
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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== | ||
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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: | ||
Ghurye, J., Pop, M., Koren, S., Bickhart, D., & Chin, C. S. (2017). Scaffolding of long read assemblies using long range contact information. BMC genomics, 18(1), 527. [https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-017-3879-z link]. | |||
|}} | |}} | ||
Latest revision as of 20:11, 24 August 2022
Description
A tool to scaffold long read assemblies with Hi-C
Environment Modules
Run module spider salsa to find out what environment modules are available for this application.
System Variables
- HPC_SALSA_DIR - installation directory
Citation
If you publish research that uses salsa you have to cite it as follows:
Ghurye, J., Pop, M., Koren, S., Bickhart, D., & Chin, C. S. (2017). Scaffolding of long read assemblies using long range contact information. BMC genomics, 18(1), 527. link.