Difference between revisions of "CANVAS"

From UFRC
Jump to navigation Jump to search
(Created page with "Category:SoftwareCategory:Phylogenetics {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|canvas}} |{{#vardefine:url|https://github.com/Illumina/canvas}} <!--CONFIGUR...")
 
m (Maxprok moved page Canvas to CANVAS)
 
(One intermediate revision by the same user not shown)
Line 25: Line 25:
 
==System Variables==
 
==System Variables==
 
* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
 
* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
 +
* HPC_{{uc:{{#var:app}}}}_BIN - executable directory
 +
 
<!--Configuration-->
 
<!--Configuration-->
 
{{#if: {{#var: conf}}|==Configuration==
 
{{#if: {{#var: conf}}|==Configuration==

Latest revision as of 22:23, 26 August 2020

Description

canvas website  

Canvas is a tool for calling copy number variants (CNVs) from human DNA sequencing data. It can work either with germline data, or paired tumor/normal samples. Its primary input is aligned reads (in .bam format), and its primary output is a report (in a .vcf file) giving the copy number status of the genome.

Environment Modules

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

System Variables

  • HPC_CANVAS_DIR - installation directory
  • HPC_CANVAS_BIN - executable directory




Citation

If you publish research that uses canvas you have to cite it as follows:

Canvas was first described in the publication Canvas: versatile and scalable detection of copy number variants in the journal OUP Bioinformatics

The Canvas Small Pedigree Workflow was published in the journal OUP Bioinformatics: Canvas SPW: calling de novo copy number variants in pedigrees