Difference between revisions of "Seq crumbs"
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(Created page with "Category:SoftwareCategory:biologyCategory:sequenceCategory:genomicsCategory:utilities {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|seq_crumbs}} |{{#v...") |
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| − | [[Category:Software]][[Category:biology]][[Category: | + | [[Category:Software]][[Category:biology]][[Category:sequencing]][[Category:genomics]][[Category:utility]] |
{|<!--CONFIGURATION: REQUIRED--> | {|<!--CONFIGURATION: REQUIRED--> | ||
|{{#vardefine:app|seq_crumbs}} | |{{#vardefine:app|seq_crumbs}} | ||
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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--> | ||
Latest revision as of 15:12, 27 May 2022
Description
seq_crumbs aims to be a collection of small sequence processing utilities.
seq_crumbs is modeled after the Unix command line text processing utilities so every utility tries to perform a specific task and most of them take a sequence file as input and create a new processed sequence file as output. This design encourages the assembly of the seq_crumbs utilities with Unix pipes to create complex pipelines. There are already other similar software that uses this approach like fastx and biopieces.
Environment Modules
Run module spider seq_crumbs to find out what environment modules are available for this application.
System Variables
- HPC_SEQ_CRUMBS_DIR - installation directory
- HPC_SEQ_CRUMBS_BIN - executable directory