A simple GUI to use the main features of the QFeatures package.
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Sep 14, 2026 - R
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qfeatures
Here are 5 public repositories matching this topic...
Introduction to QFeatures, Bioconductor data object for proteomics
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Oct 21, 2022 - Python
Label-free DDA proteomics differential abundance analysis, benchmarked against a spike-in study with known ground truth and applied to an arginine transporter knockout in Francisella tularensis.
bioinformatics r computational-biology bioconductor proteomics dda mass-spectrometry maxquant false-discovery-rate label-free-quantification mixed-models robust-regression qfeatures lfq differential-abundance bacterial-pathogenesis msqrob2 spike-in-benchmark pseudo-replication francisella-tularensis
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Sep 18, 2026 - R
End to end command line proteomics, Thermo RAW files through Sage search and label-free quantification to differential abundance, with entrapment-based validation of the reported false discovery rate.
bioinformatics sage bioconductor proteomics dda mass-spectrometry mzml false-discovery-rate label-free-quantification thermorawfileparser qfeatures lfq differential-abundance bacterial-pathogenesis msqrob2 francisella-tularensis
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Sep 19, 2026 - Shell
TMT proteomics differential abundance with msqrob2 mixed models, benchmarked on spike-in mixtures with known ground truth to measure ratio compression and the cost of ignoring the plex, and applied to a high fat diet study in mouse adipose tissue.
bioinformatics r bioconductor proteomics mass-spectrometry multiplexing mixed-models batch-effects reporter-ions tmt proteome-discoverer qfeatures isobaric-labeling differential-abundance msqrob2 spike-in-benchmark tandem-mass-tags ratio-compression sps-ms3 reference-channels
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Sep 23, 2026 - R
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