Genome Intelligence

Once your BLAST and OrthoMCL runs are completed, you can add the output from those processes into GenoSets. First, select Add Data in the top menu. You’re going to add OrthoMCL data from the directories where you told GenoSets to create those files.  In the Load Wizard, expand the OrthoMCL menu and then Load OrthoMCL v2. Next you’ll select the FASTA results and the OrthoMCL groups.txt file that describe your data. You’ll find these in the directory you created in…

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Study sets are ways of grouping genomes in GenoSets. You can subject all of the genomes in the study set to the same analysis, or compare sets to each other. We’re going to put all of our e. coli genomes in one study set to start off with, because we need to construct a script that sets up an all-against-all BLAST among them, and then run OrthoMCL to build the orthology information that allows us to perform content and function…

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I’m going to be adding some tutorials on how to use GenoSets, our business intelligence-inspired tool for mining multiple genome data sets. The GenoSets system integrates several fundamental processes in comparative genomic analysis.  GenoSets can be used to load tracked data associated with multiple genomes into an OLAP (Online Analytical Processing) data warehouse and to visualize set-based queries of sequence-associated metadata. In this tutorial, we’ll show you how to load genome sequence data from the EMBL database, run the ancillary…

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I’m going to be adding some tutorials on how to use GenoSets, our business intelligence-inspired tool for mining multiple genome data sets. The GenoSets system is platform independent, and installation and setup of the software is straightforward for an experienced programmer or computational scientist.  For student use, however, you may wish to provide an environment in which the software is already installed on the student’s computer, so that students can concern themselves primarily with loading and analyzing data. These detailed…

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