Revision as of 20:48, 18 January 2011 by Lstein
An annotated list of GBrowse plugins with pointers to more detailed documentation, where available. See: Creating GBrowse Plugins.
- AlignTwoSequences.pm BLASTs an input sequence against the current display, with hits as new sequence features.
- Aligner.pm prints out a multiple alignment of the selected features.
- AttributeHiliter.pm highlights features whose properties match certain criteria.
- BatchDumper.pm dumps out the currently displayed genomic segment or the segments corresponding to the given accessions, in the requested format.
- Blat.pm BLATs an input against the genome of the current organism.
- CMapDumper.pm dumps a tab delimited file that can be read by CMap.
- CreateBlastDB.pm creates a Blast-formatted database from a Bio::DB::GFF database
- FastaDumper.pm dumps out the currently displayed genomic segment in decorated FASTA format.
- FilterTest.pm filters the features.
- GeneFinder.pm a front end to Phil Green's GeneFinder program.
- GFFDumper.pm dumps various versions of GFF.
- MotifFinder.pm finds sequence specific motifs using Position Frequency Matrix.
- OligoFinder.pm finds oligos between 11 and 50 bp in length.
- PamAuthenticate.pm authenticate users using Pluggable Authentication Modules.
- ProteinDumper.pm dumps translated protein sequences in various formats.
- PrimerDesigner.pm real-time design PCR primers for a selected region.
- RandomGene.pm generates random genes, designed to demonstrate annotator plugins.
- RestrictionAnnotator.pm generates a restriction map on the current view.
- Spectrogram.pm digital signal processing of DNA sequences.
- Submitter.pm submit selected sequences to external web sites
- TrackFinder.pm filter and highlight the track listing according to keywords
- TestAuthenticator.pm a simple test of the authentication plugin system that looks for a hardcoded username/password.
- test.pm used to test that the dump architecture is working properly.
- YourPlugin.pm your cool plugin described here...