Question: Bioinformatics And Graph Platforms Like "Powergraph" Or "Graphlab"
gravatar for Farhad
5.3 years ago by
Farhad10 wrote:

I am new to Bioinformatics, Graph Platforms like "PowerGraph" and "GraphLab" are introduced to process large scale, social and natural graphs, I'm looking for their usage in Bioinformatics, i appreciate your help in advance.

bioinformatics parallel graph • 1.3k views
ADD COMMENTlink modified 5.3 years ago by Mikael Huss4.6k • written 5.3 years ago by Farhad10
gravatar for Mikael Huss
5.3 years ago by
Mikael Huss4.6k
Mikael Huss4.6k wrote:

There could be a place for these in de novo sequence assembly, where the goal is basically to find a good path through a very large graph (like a de Bruijn graph or a string graph) describing sequence overlaps. I am not sure why I haven't seen any such implementations of assemblers. There is a Hadoop based assembler, Contrail, but GraphLab etc seem more naturally suited to the problem.

Of existing applications, I suppose things like predicting drug-target interactions are relevant.

ADD COMMENTlink written 5.3 years ago by Mikael Huss4.6k
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