Julianus Pfeuffer
Julianus Pfeuffer
saves intermediate disk space (pepxml output can be read anyway) but is untested with the OpenMS adapter
This is in the tools folder but I don't know how to run this automatically for the user since they will need a UI
Yes true there are multiple things to consider: - Interactive plots are in theory as simple as ggplotly(ggplot_object) - But: The Msstats plots are not designed "clean" enough to do...
waiting for https://github.com/OpenMS/OpenMS/pull/5264
Makes sense. Can you post how such an error would look like? Maybe we can also check in an independent step, if everything is correctly picked first.
Was this because of empty spectra where there is no peakpicking/centroided annotation performed by TRFP?
A multiQC or ptxQC integration would be great! Let me know how to structure all the needed outputs.
Update: we have multiQC AND ptxQC support. It needs to get more stable and elaborate though.
This is a problem with ThermoRawFileParser: https://github.com/compomics/ThermoRawFileParser/issues/46
https://github.com/compomics/ThermoRawFileParser/issues/108