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diff --git a/academic/RepeatMasker/README b/academic/RepeatMasker/README new file mode 100644 index 0000000000..a62062fa85 --- /dev/null +++ b/academic/RepeatMasker/README @@ -0,0 +1,31 @@ +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 (part of 'HMMER', available on SBo) +- Cross_Match. Due to licensing, you should obtain this yourself: + http://www.phrap.org +- ABBlast/WUBlast. Due to licensing, you should obtain this yourself: + https://blast.advbiocomp.com/licensing/ +- RMBlast (found as 'ncbi-rmblastn' on SBo) + +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. + +WARNING! +Due to the bundled databases, the installed size of this is 1.8 GiB! + +NOTE! +The package is installed in /opt. After install go fo /opt/RepeatMasker +and run the RepeatMasker Configuration Program: + +# perl ./configure + +See README.SLACKWARE for details. |