Dr. Tom Conway – Alignment Free Methods For Sequence Comparison

Date: Friday, 28th September, 2012
Time: 3.30
Location: Room 103, Old Metallurgy building, University of Melbourne

Description: Many, if not most, analysis pipelines for sequence data start by
mapping the sequences to a reference sequence. However, there is a
class of techniques sometimes called “alignment free” which work by
decomposing sequences in to short fixed length “k-mers”, and then
manipulate these as a spectrum or a set to achieve the desired
analysis. We will discuss some of these, and also touch on some
efficient ways of representing large sets of k-mers.

Dr. Tom Conway, Senior Software Engineer, NICTA Victoria Research Laboratory
Tom Conway received his PhD at The University of Melbourne, having
worked in the area of declarative programming languages. He later
worked at Multimedia Database Systems as a senior developer and
software architect specialising in advanced data structures and
concurrency, and a network delivered video startup Bluebox Devices as
a search specialist. He is currently a senior researcher at NICTA,
leading the Computational Genomics group, working with various
biomedical collaborators to develop efficient and scalable techniques
for analysing high throughput sequencing data.

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