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Philosopher 5.0.0
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@AimeeD90 AimeeD90 released this 31 May 21:19
· 68 commits to master since this release
v5.0.0
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Learn about vigilant mode.

Added

  • Added the protein start and end positions to ions and peptides report.
  • ProtXML reading parallelization.
  • Added a new Extended Peptide column to the PSM report containing the flanking regions of peptides.
  • Group-based FDR scoring option (based on the group labeled passed by MSFragger).
  • Support for sCLIP isobaric tags.

Changed

  • Rolled back the FASTA header checking for IonQuant.
  • Improved the FASTA header detection and parsing.
  • PTMProphet was updated to v6.2.0.
  • Faster processing speed and reduced memory usage due to major improvements in IO operations and database reading (@guoci).
  • The purity column will always be visible in the PSM table.
  • Updated the MSstats report for TMT data, making them compatible with MSstats and MSstats-PTM.

Fixed

  • Updated razor mapping rules to reinforce classifying decoy razor proteins.
  • Fixed a problem where protein names and genes would not be tagged with the decoy tag.

Contributors

guoci
Assets 5
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