Difference between revisions of "Structure"

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__NOTOC__
 
__NOTOC__
 
__NOEDITSECTION__
 
__NOEDITSECTION__
[[Category:Software]][[Category:Bioinformatics]]
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[[Category:Software]][[Category:Biology]][[Category:Genomics]]
 
{|<!--Main settings - REQUIRED-->
 
{|<!--Main settings - REQUIRED-->
 
|{{#vardefine:app|structure}}
 
|{{#vardefine:app|structure}}
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You will have to provide the mainparams and extraparams files in a working
 
You will have to provide the mainparams and extraparams files in a working
 
directory from which you run the software or via the arguments:
 
directory from which you run the software or via the arguments:
* -m path/to/mainparams
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* -m /path/to/mainparams
* -e path/to/extraparams
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* -e /path/to/extraparams
* -s path/to/STRATparams
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* -s /path/to/STRATparams
  
 
Sample files are located in the''$HPC_STRUCTURE_CONF'' directory.
 
Sample files are located in the''$HPC_STRUCTURE_CONF'' directory.
 
<!--Modules-->
 
<!--Modules-->
==Required Modules==
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==Environment Modules==
[[Modules|modules documentation]]
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Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
===Serial===
 
*{{#var:app}}
 
 
==System Variables==
 
==System Variables==
* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
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* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
 
* HPC_STRUCTURE_BIN - executable directory
 
* HPC_STRUCTURE_BIN - executable directory
 
* HPC_STRUCTURE_DOC - documentation directory
 
* HPC_STRUCTURE_DOC - documentation directory

Latest revision as of 16:03, 22 August 2022

Description

structure website  

Structure implements a model-based clustering method for inferring population structure using genotype data consisting of unlinked markers

You will have to provide the mainparams and extraparams files in a working directory from which you run the software or via the arguments:

  • -m /path/to/mainparams
  • -e /path/to/extraparams
  • -s /path/to/STRATparams

Sample files are located in the$HPC_STRUCTURE_CONF directory.

Environment Modules

Run module spider structure to find out what environment modules are available for this application.

System Variables

  • HPC_STRUCTURE_DIR - installation directory
  • HPC_STRUCTURE_BIN - executable directory
  • HPC_STRUCTURE_DOC - documentation directory
  • HPC_STRUCTURE_CONF - directory with sample configuration files