GI Datasets

All predicted GIs can be downloaded for the following tools:

1. IslandViewer (all methods)- (Excel, TAB, CSV, FASTA)
2. IslandPick - (Excel, TAB, CSV, FASTA)
3. IslandPath-DIMOB - (Excel, TAB, CSV, FASTA)
4. SIGI-HMM - (Excel, TAB, CSV, FASTA)

The original positive and negative GI datasets for 118 bacterial chromosomes (in Langille et al., 2008) may be used for evaluating sequence composition based GI predictors.

Source Code

Please note that the following three methods are integrated into IslandViewer.

IslandPick is currently very dependent on an in-house MySQL database of all published genomes, and is optimized for use on our computer cluster. Although it would require a significant amount of effort for a casual user to install, we still believe in open access to our software. Therefore, those researchers with sophisticated bioinformatics backgrounds are welcome to view and use our source code, which is available under a GPL license here.

IslandPath-DIMOB source code is available under a GPL license here. This code has been tested only on linux and requires that Perl, BioPerl, and HMMER be installed on the user's computer.

SIGI-HMM is available for download here.

We would encourage users to contact us with any special requests or concerns.