zrolfs issues

Results 16 issues of


                                            zrolfs

[WIP] Permutation Testing

WIP

Refactor Averagine Code

We have two locations (FlashLFQ and MzSpectrum) that use averagine. Both of these are private. I propose a public averagine class that allows the input of a mass and outputs...

Maintenance

good first project

Glycans are not read in from xmls

Other mods are read because their feature type is "modified residue". Glycans are currently ignored with the feature type of "glycosylation site".

Ensure fidelity of Spritz/variant databases with Slided/Random decoy generation

Generate all the proteolytic products as distinct proteins during XML reading and delete the ProteolysisProducts parameter

Solves downstream issues with parsimony, quantification, etc

The number of target peptides is not the same as the number of decoy peptides

This appears to be an N-terminal Methionine related issue. It is observed independent of variable modifications, but disappears without an M on the N-terminus. I suspect there are two problems:...