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This project was conducted in the first round of SHARCNET's dedicated programming support competition. It mainly concerned developing a program that reads in the sequences of all genes present on a specified set of bacterial genomes and then creates clusters of related genes.

The program was multi-staged:

  • download necessary genome files and prepare them
  • submit BLAST comparisons of all genomes
  • generate a listing of all significant alignment matches (hits) from BLAST output
  • analyze hits based on some criteria for what consitutes an interesting link between genes
  • build clusters (basically graphs) showing genetic links

The program was written as a series of perl scripts.

Results obtained with the final workflow of the project were presented in this publication: Origin and evolution of gene families in Bacteria and Archaea.

For further information about the project feel free to contact Hugh Merz.