RepeatMasker

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.

Environment Variables

• HPC_REPEATMASKER_DIR - installation directory
• HPC_REPEATMASKER_BIN - executable directory

Categories

biology, genomics