#ProteomeDiscoverer
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ralf.gabriels.dev
MS2Rescore found its way into #ProteomeDiscoverer 🥳 At least, somewhat, through #MascotServer. Thanks for the implementation and for the nice blog post, @matrixscience.bsky.social!

www.matrixscience.com/blog/using-m...
Using machine learning with Mascot and Proteome Discoverer
www.matrixscience.com
March 7, 2025 at 10:32 AM
itsbinir.bsky.social
Defining the good old Precursor Detector node in #ProteomeDiscoverer as poor man's Chimerys to deal with chimeric spectra is awesome.. From PD3.2 training session..
December 3, 2024 at 6:42 PM
brendonseale.bsky.social
New Astral news: The recommended PC for running ProteomeDiscoverer w/CHIMERYS running from Ardia is almost as powerful as the Ardia server itself... for some reason...
November 7, 2023 at 6:36 PM
cranberriesfeed.bsky.social
New CRAN package mpwR with initial version 0.1.5.1
#rstats
https://cran.r-project.org/package=mpwR
CRAN: Package mpwR
Useful functions to analyze proteomic workflows including number of identifications, data completeness, missed cleavages, quantitative and retention time precision etc. Various software outputs are supported such as 'ProteomeDiscoverer', 'Spectronaut', 'DIA-NN' and 'MaxQuant'.
cran.r-project.org
May 13, 2025 at 4:02 PM
cranberriesfeed.bsky.social
New CRAN package flowTraceR with initial version 0.1.1
#rstats
https://cran.r-project.org/package=flowTraceR
CRAN: Package flowTraceR
Useful functions to standardize software outputs from ProteomeDiscoverer, Spectronaut, DIA-NN and MaxQuant on precursor, modified peptide and proteingroup level and to trace software differences for identifications such as varying proteingroup denotations for common precursor.
cran.r-project.org
April 29, 2025 at 3:02 PM