14 July 2010

SLAC analysis: Which codon sites are under diversifying positive or negative selection?

Sorry for the lack of posts recently but there was nothing significant to report. Most of the time we (my mentors and I) were designing and improving the implementation pattern.

Now it's time to introduce you to the SLAC analysis.

The general workflow with phylogenetics tools is:
  • Upload your data via "Get Data"->"Upload File"
  • Validate your data via "Phylogenetics"->"Data Reader"
  • Run analysis e.g. SLAC via "Phylogenetics"->"SLAC"
SLAC analysis creates an HTML table report. Rows with substitutions can be unfolded to show details of each substitution.

I've also provided some documentation on running SLAC and understanding its output.

Running instance of Galaxy where you can play with SLAC can be found here.

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