<![CDATA[BOL: RepeatMasker compatible blast tool]]> https://bioinformaticsonline.com/bookmarks/view/38381/repeatmasker-compatible-blast-tool? https://bioinformaticsonline.com/bookmarks/view/38381/repeatmasker-compatible-blast-tool Fri, 07 Dec 2018 08:13:03 -0600 https://bioinformaticsonline.com/bookmarks/view/38381/repeatmasker-compatible-blast-tool <![CDATA[RepeatMasker compatible blast tool]]> RMBlast is a RepeatMasker compatible version of the standard NCBI blastn program. The primary difference between this distribution and the NCBI distribution is the addition of a new program "rmblastn" for use with RepeatMasker and RepeatModeler.

RMBlast supports RepeatMasker searches by adding a few necessary features to the stock NCBI blastn program. These include:

  • Support for custom matrices ( without KA-Statistics ).
  • Support for cross_match-like complexity adjusted scoring. Cross_match is Phil Green's seeded smith-waterman search algorithm.
  • Support for cross_match-like masklevel filtering.

https://anaconda.org/bioconda/rmblast

Address of the bookmark: http://www.repeatmasker.org/RMBlast.html

]]> Neel