v2.8.2 GUI: MSFragger + Peptide/ProteinProphet + Reports

• a one-time warning about poor MSFragger MGF file compatibility

• landing page for MSFragger download with academic/commercial licenses

• Dropdown selector for MSFragger output type: pepXML or tsv

• mapmods option was removed temporarily, while we're figuring out how to do it better

v2.8.1 GUI: MSFragger + Peptide/ProteinProphet + Reports

Use with Philosopher 1.0+

• Dropdown selector for MSFragger output type: pepXML or tsv

• changed landing page for MSFragger download

• mapmods option was removed temporarily, while we're figuring out how to do it better

v2.8 GUI: MSFragger + Peptide/ProteinProphet + Reports

Use with Philosopher 1.0+

• Dropdown selector for MSFragger output type: pepXML or tsv

• mapmods option was removed temporarily, while we're figuring out how to do it better

v2.7 GUI: MSFragger + Peptide/ProteinProphet + Reports

Use with Philosopher 1.0+

• mapmods option was removed temporarily, while we're figuring out how to do it better

• Checkbox selector for Protein/Peptide level FDR in Reports

• ANSI Colors in console output recognized

• Philosopher init and clean commands replaced with workspace command

• Updates for the new version of TPP in Philosopher

• Separate Report/Filter defaults for all the tools.

  • Buttons on Config page reset defaults for all tools.
  • Each page can also be reset separately.

v2.6 GUI: MSFragger + Peptide/ProteinProphet + Reports

Use with Philosopher 1.0+

• Checkbox selector for Protein/Peptide level FDR in Reports
• ANSI Colors in console output recognized
• Philosopher init and clean commands replaced with workspace command
• Updates for the new version of TPP in Philosopher
• Separate Report/Filter defaults for all the tools.
  • Buttons on Config page reset defaults for all tools.
  • Each page can also be reset separately.

v2.5 GUI: MSFragger + Peptide/ProteinProphet + Reports

Use with Philosopher RC8+.

• ANSI Colors in console output recognized
• Philosopher init and clean commands replaced with workspace command
• Updates for the new version of TPP in Philosopher
• Separate Report/Filter defaults for all the tools.
  • Buttons on Config page reset defaults for all tools.
  • Each page can also be reset separately.

v2.4 GUI: MSFragger + Peptide/ProteinProphet + Reports

Use with Philosopher RC7+.

• Updates for the new version of TPP in Philosopher
• Separate Report/Filter defaults for Open/Closed search

v2.3 GUI: MSFragger + Peptide/ProteinProphet + Reports

Use with Philosopher RC7+.

• Updates for the new version of TPP in Philosopher
• Separate Report/Filter defaults for Open/Closed search

v2.2 GUI: MSFragger + Peptide/ProteinProphet + Reports

Use with Philosopher RC7+.

• Updates for the new version of TPP in Philosopher
• Separate Report/Filter defaults for Open/Closed search

v2.1 GUI: MSFragger + Peptide/ProteinProphet + Reports

• Default parameters for Open and Closed searches.
• Store field values between sessions.
• Updates for Philosopher RC6.