Friday, December 30, 2016

One simple trick to have both Scaffold compatible AND .PDResult output files!

Hey! Are you still using Scaffold for some projects, but want to use the nice new .PDResult file formats in PD 2.1 for others?  Here is the setting you need to change!

In any of the Processing workflow FDR nodes, you can set your Max Delta CN. Scaffold's tutorial for the topic says to leave it at 1.  Don't worry, though, you don't have to process your data twice!

Cause PD 2.1 has another MaxDeltaCN filter in the "MSF Files" node!

If you set that to 0.05 then your .PDresult file won't be different, despite the fact that the .MSF files you generated from your processing workflow will be larger and in the correct format for Scaffold!  Heck, I can't come up with a good reason (if you have Scaffold) for not leaving this the same for all of your files -- just in case.

Shoutout to Dr. Fiedler for working this out!

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