Difference between revisions of "RepeatMasker"

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{|
 
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|{{#vardefine:app|repeatmasker}}
 
|{{#vardefine:app|repeatmasker}}
 
|{{#vardefine:url|http://www.repeatmasker.org/}}
 
|{{#vardefine:url|http://www.repeatmasker.org/}}
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performed by one of several popular search engines including,
 
performed by one of several popular search engines including,
 
cross_match, ABBlast/WUBlast, RMBlast and Decypher.
 
cross_match, ABBlast/WUBlast, RMBlast and Decypher.
 
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<!--Modules-->
==Available Versions==
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==Environment Modules==
* 3.3.0
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==System Variables==
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* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
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{{#if: {{#var: exe}}|==How To Run==
 
{{#if: {{#var: exe}}|==How To Run==
 
WRITE INSTRUCTIONS ON RUNNING THE ACTUAL BINARY|}}
 
WRITE INSTRUCTIONS ON RUNNING THE ACTUAL BINARY|}}

Latest revision as of 20:32, 12 August 2022

Description

repeatmasker website  

RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences. The output of the program is a detailed annotation of the repeats that are present in the query sequence as well as a modified version of the query sequence in which all the annotated repeats have been masked (default: replaced by Ns). On average, almost 50% of a human genomic DNA sequence currently will be masked by the program. Sequence comparisons in RepeatMasker are performed by one of several popular search engines including, cross_match, ABBlast/WUBlast, RMBlast and Decypher.

Environment Modules

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

System Variables

  • HPC_REPEATMASKER_DIR - installation directory