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Biostumblematic

A biophysicist teaches himself how to code

Category Archives: Data parsing

I’ve started doing some Mass Spec, and one of the issues we have is parsing our results.

The basic workflow is to convert the raw instrument files into peak lists, then use MASCOT to identify the proteins present in the sample. Unfortunately the MASCOT results themselves can be a bit tedious to work with.

I’ve rapidly written a couple of scripts to speed up some common things that I need to do, namely to subtract the proteins in a control experiment from those identified in a sample, and to compare two lists of hits.

Here they are for your enjoyment. I’m trying to get back to a better organization of my scripts, so these are once again available on GitHub as well.

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