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  • New dll and workflows available for PD v2.5
  • Compatible with MSFragger v3.3 and Philosopher v4.0.0
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  • Fix a bug of one MS/MS spectrum with multiple precursor charge states
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  • New dll and workflows available for PD v2.4
  • A new parameter (deisotoping) in the MSFragger node
  • Compatible with MSFragger v2.3 and Philosopher v2.1.1
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  • Allow multiple processing workflow (please see the PD-Nodes website (https://github.com/Nesvilab/PD-Nodes/blob/master/README.md) for detailed instructions
  • Support for new options introduced in MSFragger 2.0
  • Log MSFragger and Philosopher(PeptideProphet) output messages in PD job queue
  • Add a drop-down bottom for enzyme selection in MSFragger node
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  • Support RAW files (Compatible with MSFragger-20190628 or later version)
  • Add fragment annotation
  • Automatically allocate memory usage if not specified
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  • Add new MSFragger parameters

    1. calibrate_mass = 2
    2. precursor_mass_mode = selected
    3. fragment_ion_series = b,y
    4. report_alternative_proteins = 0
  • Update MSFragger parameters

    1. shifted_ions -> localize_delta_mass
    2. shifted_ions_exclude_ranges -> delta_mass_exclude_ranges
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  • MSFragger-PD.dll for PD v2.2 and v2.3
  • Delete temp folder after each process
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This DLL file includes MSFragger and PeptideProphet nodes.