pyXLMS 0.0.1

A python package to process protein cross-linking data.

pyXLMS

Supported search engines:

• MS Annika
• xiSearch / xiFDR
• MaxLynx
• ?

General interface with csv input

Packages to include:

• Export to xiNET
  • Req:
  • fasta file
  • Crosslink:
    • Sequence
    • XL position in peptide
    • protein accession
    • XL position in protein
    • Score
• Export to xiVIEW
  • Req: cover by xiNET Req
• Export to xiFDR
  • Req:
  • CSM:
    • Spectrum File
    • Scan Nr
    • Sequence
    • XL position in peptide
    • Precursor charge
    • Score CSM
    • Score peptide
    • protein accession
    • position of peptide in protein
    • decoy peptide
• Export to pyXlinkViewer
  • Req: all covered
• Export to XMAS
  • Req: all covered
• Export to Spectral Library
  • Req:
  • MGF
  • CSM:
    • Modification
    • RT
    • Ion Mobility / Compensation Voltage
• MS Annika FDR
  • Req: all covered
• MS Annika Combine Results
  • Req: all covered
• CSM Annotation
  • Req: this is probably MS Annika only, as it requires doublet information