RepeatMasker 4.0.9-p2-gompi-2019b-HMMER

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). Currently over 56% of human genomic sequence is identified and masked by the program. Sequence comparisons in RepeatMasker are performed by one of several popular search engines including nhmmer, cross_match, ABBlast/WUBlast, RMBlast and Decypher. RepeatMasker makes use of curated libraries of repeats and currently supports Dfam ( profile HMM library derived from Repbase sequences ) and Repbase, a service of the Genetic Information Research Institute.

Accessing RepeatMasker 4.0.9-p2-gompi-2019b-HMMER

To load the module for RepeatMasker 4.0.9-p2-gompi-2019b-HMMER please use this command on the BEAR systems (BlueBEAR and BEAR Cloud VMs):

📋 module load RepeatMasker/4.0.9-p2-gompi-2019b-HMMER

BEAR Apps Version

2019b

Architectures

EL8-cascadelake — EL8-icelake — EL8-sapphirerapids

The listed architectures consist of two part: OS-CPU. The OS used is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.

More Information

For more information visit the RepeatMasker website.

Dependencies

This version of RepeatMasker has a direct dependency on: gompi/2019b HMMER/3.2.1-gompi-2019b Perl/5.30.0-GCCcore-8.3.0 TRF/4.09-linux64

Required By

This version of RepeatMasker is a direct dependent of: funannotate/1.8.1-foss-2019b-Python-2.7.16 funannotate/1.8.1-foss-2019b-Python-3.7.4

Last modified on 12th October 2020