Use Blast2GO to explain basic bioinformatics concept like sequence alignments with BLAST, functional annotation with the Gene Ontology, public biological databases, KEGG pathways etc. If you are planing a teaching activity, please let us know and we will provide you with teaching presentations and Blast2GO practial sessions including excercises with solution and datasets. Please write us.
Script provided by Blast2GO users for Blast2GO users
These scripts are provided as-is. Please contact the respective authors for more information/feedback.
B2G4PIPE - Blast2GO without graphical interface
The Blast2GO Pipeline Version (B2G4Pipe) runs Blast2GO without graphical interface. The pipeline accepts BLAST and InterProScan results and parses the XML belonging to each sequence (provided in FASTA format). The program extracts GO terms to each obtained blast hit by mapping to existent annotation associations. An annotation rule finally assigns GO terms to the query sequence. Additionally you can add domian/motif based GO term obtained through InterProScan searches. Deduced GO terms are added to the BLAST based annotations, always taking into account the GO True-Path-Rule.
The output files generated by B2G4Pipe are equivalent to the file generated by the desktop application. The annotation file (.annot) is a tab separated file containing the sequence names and gene ontology IDs. An additional row holds a sequence description. The B2G Project File (.dat) is a proprietary format and can be opened with the B2G desktop application to perform manual re-annotations or GO base analysis (Graph-Visualization, Fisher 2X2, statistic, bar/pies charts). The ".dat" generation is not recomended when working with very large datasets due to memory limitations.
This version includes: