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smith-chem-wisc / FlashLFQ

Ultra-fast label-free quantification algorithm for mass-spectrometry proteomics
GNU Lesser General Public License v3.0
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How to quantify cross-linked data? #86

Open Dmorgen opened 4 years ago

Dmorgen commented 4 years ago

what should be put in the base/full sequence?

Thanks! D.

rmillikin commented 4 years ago

the full sequence can be whatever you want (it's just a label). the base sequence must be composed of only amino acids, and it's best if you can get as close to the real composition of the molecule as possible. though it will still work if you put in a dummy sequence (it will use mostly averagine). so you could just put something like "G" for every base sequence, or you could put in the alpha+beta peptide sequences mashed together. both would work reasonably well I think

Dmorgen commented 4 years ago

Will do, thanks!

D.