Lincoln D. Stein


Bio::Graphics::Browser2::Plugin::AlignTwoSequences -- a plugin that executes NCBI's bl2seq on the current view


 in 0X.organism.conf:
 bl2seq_executable = /usr/local/BLAST/bl2seq


This Gbrowse plugin will take a sequence (entered in the configuration screen) and BLAST it against the current display, with hits as new sequence features.

You must, of course, have the NCBI Blast suite of programs installed, you must have configured the plugin to be visible, and you must set a single plugin parameter in the 0X.organism.conf file: [AlignTwoSequences:plugin] bl2seq_executable = /path/to/your/bl2seq