pygecko package

Subpackages

• pygecko.analysis package
  • Submodules
  • pygecko.analysis.analysis module
    • Analysis
      • Analysis.calc_plate_conv()
      • Analysis.calc_plate_yield()
      • Analysis.fit_calibration_curve()
      • Analysis.match_mz_plate()
      • Analysis.quantify_analyte()
      • Analysis.quantify_plate()
  • Module contents
• pygecko.data_handling package
  • Submodules
  • pygecko.data_handling.reports module
    • PDF_Report
      • PDF_Report.create_conditions_table()
    • Report
  • Module contents
• pygecko.gc_tools package
  • Subpackages
    • pygecko.gc_tools.analysis package
      • Submodules
      • pygecko.gc_tools.analysis.analysis_settings module
      • pygecko.gc_tools.analysis.quantification module
      • pygecko.gc_tools.analysis.retention_indices module
      • pygecko.gc_tools.analysis.spectral_matching module
      • Module contents
    • pygecko.gc_tools.injection package
      • Submodules
      • pygecko.gc_tools.injection.fid_injection module
      • pygecko.gc_tools.injection.injection module
      • pygecko.gc_tools.injection.ms_injection module
      • Module contents
    • pygecko.gc_tools.peak package
      • Submodules
      • pygecko.gc_tools.peak.fid_peak module
      • pygecko.gc_tools.peak.ms_peak module
      • pygecko.gc_tools.peak.peak module
      • pygecko.gc_tools.peak.peak_detection_fid module
      • pygecko.gc_tools.peak.peak_detection_ms module
      • Module contents
    • pygecko.gc_tools.sequence package
      • Submodules
      • pygecko.gc_tools.sequence.fid_sequence module
      • pygecko.gc_tools.sequence.gc_sequence module
      • pygecko.gc_tools.sequence.ms_sequence module
      • Module contents
  • Submodules
  • pygecko.gc_tools.analyte module
    • Analyte
      • Analyte.rt
      • Analyte.name
      • Analyte.smiles
      • Analyte.mol
      • Analyte.mol
      • Analyte.mz
      • Analyte.name
      • Analyte.rt
      • Analyte.smiles
  • pygecko.gc_tools.utilities module
    • Utilities
      • Utilities.check_interval()
      • Utilities.convert_time_to_scan()
      • Utilities.find_empty_ranges()
  • Module contents
• pygecko.parsers package
  • Submodules
  • pygecko.parsers.agilent_fid_parser module
    • Agilent_FID_Parser
      • Agilent_FID_Parser.load_injection()
      • Agilent_FID_Parser.load_ri_calibration()
      • Agilent_FID_Parser.load_sequence()
  • pygecko.parsers.agilent_ms_parser module
    • Agilent_MS_Parser
      • Agilent_MS_Parser.load_injection()
      • Agilent_MS_Parser.load_ri_calibration()
      • Agilent_MS_Parser.load_sequence()
  • pygecko.parsers.fid_base_parser module
    • FID_Base_Parser
      • FID_Base_Parser.load_injection()
      • FID_Base_Parser.load_ri_calibration()
      • FID_Base_Parser.load_sequence()
      • FID_Base_Parser.read_xy_array()
  • pygecko.parsers.file_readers module
    • extract_scans_from_mzml()
    • extract_scans_from_mzxml()
  • pygecko.parsers.ms_base_parser module
    • MS_Base_Parser
      • MS_Base_Parser.extract_scans_from_raw_data()
      • MS_Base_Parser.initialize_injection()
      • MS_Base_Parser.load_injection()
      • MS_Base_Parser.load_ri_calibration()
      • MS_Base_Parser.load_sequence()
  • pygecko.parsers.msconvert_wraper module
    • msconvert()
  • pygecko.parsers.utilities module
    • HiddenPrints
    • find_directories_with_extension()
    • list_files_and_directories()
  • Module contents
• pygecko.reaction package
  • Submodules
  • pygecko.reaction.layout module
    • Combinatorial_Layout
      • Combinatorial_Layout.layout
      • Combinatorial_Layout.transformation
      • Combinatorial_Layout.meta_data
      • Combinatorial_Layout.shape
      • Combinatorial_Layout.array
      • Combinatorial_Layout.array
      • Combinatorial_Layout.layout
      • Combinatorial_Layout.meta_data
      • Combinatorial_Layout.shape
      • Combinatorial_Layout.transformation
    • Product_Layout
      • Product_Layout.layout
      • Product_Layout.shape
      • Product_Layout.array
      • Product_Layout.array
      • Product_Layout.layout
      • Product_Layout.shape
  • pygecko.reaction.reaction_parser module
    • Reaction_Parser
      • Reaction_Parser.build_dataset()
      • Reaction_Parser.create_dataset_from_layout()
  • pygecko.reaction.transformation module
    • Transformation
      • Transformation.rxn_smarts
      • Transformation.transform
      • Transformation.rxn_smarts
      • Transformation.transform
  • pygecko.reaction.utilities module
    • get_num_substrates()
    • read_json()
  • pygecko.reaction.well_plate module
  • Module contents
• pygecko.visualization package
  • Submodules
  • pygecko.visualization.utilities module
    • Flags
      • Flags.overlap
      • Flags.return_flags_value()
    • create_discrete_cmap()
  • pygecko.visualization.visuals module
    • Visualization
      • Visualization.compare_mass_spectra()
      • Visualization.stack_chromatograms()
      • Visualization.view_chromatogram()
      • Visualization.view_mass_spectrum()
      • Visualization.visualize_plate()
  • Module contents

Module contents

pyGecko

An open-source Python library for the parsing, processing and analysis of GC/MS and GC/FID raw data.