Patrick W. van Zalm

The @steen_lab presents a Fragpipe-based parallelization strategy for analysis of LC-MS proteomics data. Their strategy reduced run time by 90% & enables them to map the proteomes of 1000s of samples! pubs.acs.org/doi/10.1021/ac…

The Hanno Steen lab at Boston Children's' Hospital optimized #FragPipe for a high-performance computing environment, and applied it to analyze 3348 timsTOF plasma samples (6.4 Tb) from a longitudinal COVID-19 patients study. pubs.acs.org/doi/full/10.10…

@nesvilab Where can I find the headless option? Is there, for example, a Dockerhub version of it? Or Singularity?

#FragPipe 18 release: new visualization module (view/export MS/MS spectra, special options for glycopetides, protein coverage, sorting, etc.)! New: "headless" option to run command line - great for automation/HPC/cloud. New workflows. Upgrades in all tools fragpipe.nesvilab.org

@SBGrid @bch_rc @labs_mann @Omic_Era Many thanks for this! Does it follow the latest release? Or would we have to request that?

AlphaPept, by @labs_mann - a novel ultra-fast data analysis toolbox for MS/MS data analysis is now included in our BioGrids collection. biogrids.org/software/title… Reference: biorxiv.org/content/10.110… #proteomics, @Omic_Era