Difference between revisions of "GDC-Client"

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(Created page with "Category:SoftwareCategory:BiologyCategory:BioinformaticsCategory:SequencingCategory:NGS {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|gdc-client}} |{{...")
 
 
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[[Category:Software]][[Category:Biology]][[Category:Bioinformatics]][[Category:Sequencing]][[Category:NGS]]
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[[Category:Software]][[Category:Biology]][[Category:Sequencing]][[Category:NGS]]
 
{|<!--CONFIGURATION: REQUIRED-->
 
{|<!--CONFIGURATION: REQUIRED-->
 
|{{#vardefine:app|gdc-client}}
 
|{{#vardefine:app|gdc-client}}
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<!--Modules-->
 
<!--Modules-->
==Required Modules==
+
==Environment Modules==
 
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Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
===Serial===
 
* gcc/5.2.0
 
* {{#var:app}}
 
<!--
 
===Parallel (OpenMP)===
 
* intel
 
* {{#var:app}}
 
===Parallel (MPI)===
 
* intel
 
* openmpi
 
* {{#var:app}}
 
-->
 
 
==System Variables==
 
==System Variables==
* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
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* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
 
<!--Configuration-->
 
<!--Configuration-->
 
{{#if: {{#var: conf}}|==Configuration==
 
{{#if: {{#var: conf}}|==Configuration==

Latest revision as of 18:57, 12 August 2022

Description

gdc-client website  

The GDC provides a standard client-based mechanism in support of high performance data downloads and submission. The raw sequence files, typically stored as BAM or FASTQ, make up the bulk of data. The size for a single file can vary greatly depending on the specific analysis; However, some of the whole genome BAM files in The Cancer Genome Atlas (TCGA) reach sizes of 200-300 GB. In such cases, a high performance data download and submission client is essential.

Environment Modules

Run module spider gdc-client to find out what environment modules are available for this application.

System Variables

  • HPC_GDC-CLIENT_DIR - installation directory