Welcome to maspy’s documentation!

Contents:

• Introduction to basic concepts of MasPy
  • MS spectra in MasPy
    • The mzML file format
    • MsrunContainer
    • Run metadata (Rm)
    • Spectrum array item (Sai), spectrum metadata item (Smi)
    • Chromatogram item (Ci)
    • Spectrum item (Si)
    • MsrunContainer.info
    • MasPy file formats
    • Basic code examples
      • Importing an mzML file
      • Saving an MsrunContainer to the hard disk
      • Loading an MsrunContainer from the hard disk
      • Deleting data from an MsrunContainer
      • Exporting specfiles from MsrunContainer to mzML files
      • Accessing data from an MsrunContainer
  • Spectrum identifications in MasPy
    • The mzIdentML file format
    • Representation of spectrum identifications in MasPy
    • The spectrum identification item container (SiiContainer)
    • Basic code examples
    • Depricated - work in progress
  • Peptide LC-MS features in MasPy
    • Representation of LC-MS features in MasPy
    • Supported feature detection algorithms
    • Basic code examples
  • Fasta files in MasPy
    • The FASTA file format
    • Protein database in MasPy
    • Basic code examples
    • Depricated
• maspy package
  • Submodules
  • maspy.auxiliary module
  • maspy.constants module
  • maspy.core module
  • maspy.errors module
  • maspy.featuremethods module
  • maspy.inference module
    • Relevant terms from the PSI-MS ontology
    • Additional terms used in maspy
  • maspy.isobar module
  • maspy.mit_stats module
  • maspy.peptidemethods module
  • maspy.proteindb module
  • maspy.reader module
  • maspy.writer module
  • maspy.sil module
  • maspy.xml module
  • Module contents

Indices and tables

• Index
• Module Index
• Search Page