Difference between revisions of "RepeatMasker"
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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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| − | + | ==Environment Modules== | |
| − | + | Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | |
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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|}} | ||
Revision as of 17:27, 10 June 2022
Description
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