Fristensky Lab

RESEARCH

Our Bioinformatics Team leads the efforts to manage and analyze data from the Microbial Genomics project. Our work includes
  • genome assembly and annotation
  • transcriptomics
  • database management
  • end-user software development
Microbial
                  Genomics for Biofuels and Co-Products from Biorefining
                  Processes
BIRCH is
  • is a comprehensive desktop bioinformatics system integrating many of the commonly-used bioinformatics programs
  • is a framework of tools, files, and documentation for organizing and managing a bioinformatics core facility
  • can be customized by seamlessly merging 3rd party applications into BIRCH
BIRCH
BioLegato is best thought of as a program that runs other programs. bioLegato is the primary graphic interface for launching programs in BIRCH. For each program, bioLegato provides a menu that lets you set program parameters, launch the program, and view the output. bioLegato takes care of all of the background details, such as translating files from one format into another. In many cases, output also goes to a new bioLegato window, making it possible to do ad hoc pipelining. This is one of the most powerful aspects of bioLegato, because it means that you can usually run additional programs using the output of one program as the input of the next. In contrast, most browser-based applications display output in a human-readable form that allows no further analysis by other programs.
Ph.D. student Abiel Roche (Computer Science) is investigating the application of a class of Finite State Automata, called Transducers, to the comparison of biological networks between different species, or between members of the same species in different experimental conditions. The goal is to develop metrics for quantifying the differences between congruent pathways, and for identifying subnetworks that are congruent between larger networks.


Many thanks to our sponsors:


Genome PrairieUniversity of ManitobaManitoba Innovation, Energy and Mines