-
Something I noticed the other day when crunching data. The differences start with aggregated proteoforms. The values in the method file are matching the default parameter values in the program if noth…
-
I think there are two good options for visualizing proteoforms: 1) piping our program into Cytoscape and 2) using a GraphViz wrapper for C#. Here are some resources on these options that I found today…
-
-
Consider we have two ExperimentalProteoforms with identical masses. We're missing relations with that case right now because we're not allowing the masses to be equal:
List relations = new List(from p…
-
The pull request I just made has matching # neucode pairs, agg proteoforms, ET pairs/peaks, and EE pairs/peaks with the old proteoform suite for the "Auto-short" excel file in Examples. To accomplish …
-
Collapse duplicate entries having the same mass into a single entry. Ribo A&B are an example with the same amino acids in different order, producing the same proteoform mass.
-
I noticed that when you create decoy databases, there's a lot of repeats (different "accession number", same mass) decoys within one decoy database, as well as repeats between decoy databases. Since t…
-
protein identification
under spectral analysis and under protein analysis
definition: identification of protein, for example from one or more peptide identifications by tandem mass spectrometry.
sy…