CoreMS 2.2.1__tar.gz → 3.0.0__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- {CoreMS-2.2.1 → CoreMS-3.0.0}/CoreMS.egg-info/PKG-INFO +28 -16
- {CoreMS-2.2.1 → CoreMS-3.0.0}/CoreMS.egg-info/SOURCES.txt +13 -16
- {CoreMS-2.2.1 → CoreMS-3.0.0}/CoreMS.egg-info/requires.txt +4 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/PKG-INFO +28 -16
- {CoreMS-2.2.1 → CoreMS-3.0.0}/README.md +27 -15
- CoreMS-3.0.0/corems/__init__.py +52 -0
- CoreMS-3.0.0/corems/chroma_peak/calc/ChromaPeakCalc.py +260 -0
- CoreMS-3.0.0/corems/chroma_peak/factory/chroma_peak_classes.py +826 -0
- CoreMS-3.0.0/corems/encapsulation/constant.py +1283 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/encapsulation/factory/parameters.py +161 -39
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/encapsulation/factory/processingSetting.py +312 -202
- CoreMS-3.0.0/corems/encapsulation/input/parameter_from_json.py +499 -0
- CoreMS-3.0.0/corems/encapsulation/output/parameter_to_dict.py +113 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/encapsulation/output/parameter_to_json.py +150 -42
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectra/calc/GC_Calc.py +35 -29
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectra/calc/GC_Deconvolution.py +226 -140
- CoreMS-3.0.0/corems/mass_spectra/calc/GC_RI_Calibration.py +44 -0
- CoreMS-3.0.0/corems/mass_spectra/calc/LC_Calc.py +1422 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectra/calc/MZSearch.py +77 -87
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectra/calc/SignalProcessing.py +199 -147
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectra/factory/GC_Class.py +161 -100
- CoreMS-3.0.0/corems/mass_spectra/factory/LC_Class.py +1118 -0
- CoreMS-3.0.0/corems/mass_spectra/factory/chromat_data.py +51 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectra/input/andiNetCDF.py +5 -6
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectra/input/boosterHDF5.py +2 -2
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectra/input/brukerSolarix.py +1 -2
- CoreMS-3.0.0/corems/mass_spectra/input/corems_hdf5.py +530 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectra/input/massList.py +7 -20
- CoreMS-3.0.0/corems/mass_spectra/input/mzml.py +471 -0
- CoreMS-3.0.0/corems/mass_spectra/input/parserbase.py +66 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectra/input/rawFileReader.py +413 -208
- CoreMS-3.0.0/corems/mass_spectra/output/export.py +1785 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectrum/calc/AutoRecalibration.py +87 -72
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectrum/calc/Calibration.py +245 -157
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectrum/calc/CalibrationCalc.py +91 -81
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectrum/calc/KendrickGroup.py +79 -76
- CoreMS-3.0.0/corems/mass_spectrum/calc/MassErrorPrediction.py +436 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectrum/calc/MassSpectrumCalc.py +84 -71
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectrum/calc/MeanResolvingPowerFilter.py +75 -66
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectrum/calc/NoiseCalc.py +131 -118
- CoreMS-3.0.0/corems/mass_spectrum/calc/NoiseCalc_Bayes.py +93 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectrum/calc/PeakPicking.py +385 -272
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectrum/factory/MassSpectrumClasses.py +393 -287
- CoreMS-3.0.0/corems/mass_spectrum/input/baseClass.py +524 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectrum/input/boosterHDF5.py +21 -25
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectrum/input/coremsHDF5.py +66 -33
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectrum/input/massList.py +135 -72
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/mass_spectrum/input/numpyArray.py +47 -22
- CoreMS-3.0.0/corems/mass_spectrum/output/export.py +823 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/molecular_formula/calc/MolecularFormulaCalc.py +420 -264
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/molecular_formula/factory/MolecularFormulaFactory.py +394 -263
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/molecular_formula/input/masslist_ref.py +138 -144
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/molecular_id/calc/ClusterFilter.py +103 -104
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/molecular_id/calc/MolecularFilter.py +48 -48
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/molecular_id/calc/SpectralSimilarity.py +100 -88
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/molecular_id/calc/math_distance.py +181 -131
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/molecular_id/factory/EI_SQL.py +168 -130
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/molecular_id/factory/MolecularLookupTable.py +407 -392
- CoreMS-3.0.0/corems/molecular_id/factory/classification.py +803 -0
- CoreMS-3.0.0/corems/molecular_id/factory/lipid_molecular_metadata.py +45 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/molecular_id/factory/molecularSQL.py +313 -253
- CoreMS-3.0.0/corems/molecular_id/factory/spectrum_search_results.py +116 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/molecular_id/input/nistMSI.py +32 -46
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/molecular_id/search/compoundSearch.py +89 -53
- CoreMS-3.0.0/corems/molecular_id/search/database_interfaces.py +837 -0
- CoreMS-3.0.0/corems/molecular_id/search/findOxygenPeaks.py +330 -0
- CoreMS-3.0.0/corems/molecular_id/search/lcms_spectral_search.py +310 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/molecular_id/search/molecularFormulaSearch.py +367 -216
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/molecular_id/search/priorityAssignment.py +319 -250
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/ms_peak/calc/MSPeakCalc.py +361 -239
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/ms_peak/factory/MSPeakClasses.py +59 -55
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/transient/calc/TransientCalc.py +146 -132
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/transient/factory/TransientClasses.py +77 -76
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/transient/input/brukerSolarix.py +93 -109
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/transient/input/midasDatFile.py +52 -55
- {CoreMS-2.2.1 → CoreMS-3.0.0}/requirements.txt +4 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/setup.py +1 -1
- {CoreMS-2.2.1 → CoreMS-3.0.0}/tests/test_input.py +2 -2
- {CoreMS-2.2.1 → CoreMS-3.0.0}/tests/test_molecular_formula_search.py +11 -12
- {CoreMS-2.2.1 → CoreMS-3.0.0}/tests/test_mspeak.py +0 -2
- {CoreMS-2.2.1 → CoreMS-3.0.0}/tests/test_setting_settings.py +1 -1
- CoreMS-3.0.0/tests/test_wf_lipidomics.py +269 -0
- CoreMS-2.2.1/corems/__init__.py +0 -376
- CoreMS-2.2.1/corems/chroma_peak/calc/ChromaPeakCalc.py +0 -96
- CoreMS-2.2.1/corems/chroma_peak/factory/ChromaPeakClasses.py +0 -361
- CoreMS-2.2.1/corems/collection/__init__.py +0 -1
- CoreMS-2.2.1/corems/encapsulation/constant.py +0 -1007
- CoreMS-2.2.1/corems/encapsulation/input/parameter_from_json.py +0 -339
- CoreMS-2.2.1/corems/encapsulation/output/parameter_to_dict.py +0 -63
- CoreMS-2.2.1/corems/mass_spectra/calc/GC_RI_Calibration.py +0 -36
- CoreMS-2.2.1/corems/mass_spectra/calc/LC_Calc.py +0 -100
- CoreMS-2.2.1/corems/mass_spectra/calc/LF_Targeted.py +0 -163
- CoreMS-2.2.1/corems/mass_spectra/factory/LC_Class.py +0 -555
- CoreMS-2.2.1/corems/mass_spectra/factory/LC_Temp.py +0 -43
- CoreMS-2.2.1/corems/mass_spectra/input/coremsHDF5.py +0 -89
- CoreMS-2.2.1/corems/mass_spectra/output/export.py +0 -858
- CoreMS-2.2.1/corems/mass_spectrum/calc/MassErrorPrediction.py +0 -377
- CoreMS-2.2.1/corems/mass_spectrum/calc/NoiseCalc_Bayes.py +0 -91
- CoreMS-2.2.1/corems/mass_spectrum/input/baseClass.py +0 -475
- CoreMS-2.2.1/corems/mass_spectrum/output/export.py +0 -670
- CoreMS-2.2.1/corems/molecular_id/calc/KendrickGroup.py +0 -0
- CoreMS-2.2.1/corems/molecular_id/factory/classification.py +0 -694
- CoreMS-2.2.1/corems/molecular_id/search/findOxygenPeaks.py +0 -287
- CoreMS-2.2.1/corems/transient/__init__.py +0 -0
- CoreMS-2.2.1/corems/transient/calc/__init__.py +0 -0
- CoreMS-2.2.1/corems/transient/factory/__init__.py +0 -0
- CoreMS-2.2.1/corems/transient/input/__init__.py +0 -0
- CoreMS-2.2.1/ext_lib/__init__.py +0 -0
- CoreMS-2.2.1/tests/test_LossFinder.py +0 -91
- CoreMS-2.2.1/tests/test_assembly_identification.py +0 -480
- CoreMS-2.2.1/tests/test_massErrorPrediction.py +0 -21
- CoreMS-2.2.1/tests/test_mz_search.py +0 -22
- {CoreMS-2.2.1 → CoreMS-3.0.0}/CoreMS.egg-info/dependency_links.txt +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/CoreMS.egg-info/top_level.txt +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/Dockerfile +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/LICENSE +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/MANIFEST.in +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/chroma_peak/__init__.py +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/chroma_peak/calc/__init__.py +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/corems/chroma_peak/factory/__init__.py +0 -0
- {CoreMS-2.2.1/corems/collection/factory → CoreMS-3.0.0/corems/encapsulation}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/collection/input → CoreMS-3.0.0/corems/encapsulation/factory}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/collection/output → CoreMS-3.0.0/corems/encapsulation/input}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/encapsulation → CoreMS-3.0.0/corems/encapsulation/output}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/encapsulation/factory → CoreMS-3.0.0/corems/mass_spectra}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/encapsulation/input → CoreMS-3.0.0/corems/mass_spectra/calc}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/encapsulation/output → CoreMS-3.0.0/corems/mass_spectra/factory}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/mass_spectra → CoreMS-3.0.0/corems/mass_spectra/input}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/mass_spectra/calc → CoreMS-3.0.0/corems/mass_spectra/output}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/mass_spectra/factory → CoreMS-3.0.0/corems/mass_spectrum}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/mass_spectra/input → CoreMS-3.0.0/corems/mass_spectrum/calc}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/mass_spectra/input/win_only → CoreMS-3.0.0/corems/mass_spectrum/factory}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/mass_spectra/output → CoreMS-3.0.0/corems/mass_spectrum/input}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/mass_spectrum → CoreMS-3.0.0/corems/mass_spectrum/output}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/mass_spectrum/calc → CoreMS-3.0.0/corems/molecular_formula}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/mass_spectrum/factory → CoreMS-3.0.0/corems/molecular_formula/calc}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/mass_spectrum/input → CoreMS-3.0.0/corems/molecular_formula/factory}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/mass_spectrum/input/win_only → CoreMS-3.0.0/corems/molecular_formula/input}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/mass_spectrum/output → CoreMS-3.0.0/corems/molecular_id}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/molecular_formula → CoreMS-3.0.0/corems/molecular_id/calc}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/molecular_formula/calc → CoreMS-3.0.0/corems/molecular_id/factory}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/molecular_formula/factory → CoreMS-3.0.0/corems/molecular_id/input}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/molecular_formula/input → CoreMS-3.0.0/corems/molecular_id/search}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/molecular_id → CoreMS-3.0.0/corems/ms_peak}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/molecular_id → CoreMS-3.0.0/corems/ms_peak}/calc/__init__.py +0 -0
- {CoreMS-2.2.1/corems/molecular_id → CoreMS-3.0.0/corems/ms_peak}/factory/__init__.py +0 -0
- {CoreMS-2.2.1/corems/molecular_id/input → CoreMS-3.0.0/corems/transient}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/molecular_id/search → CoreMS-3.0.0/corems/transient/calc}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/ms_peak → CoreMS-3.0.0/corems/transient/factory}/__init__.py +0 -0
- {CoreMS-2.2.1/corems/ms_peak/calc → CoreMS-3.0.0/corems/transient/input}/__init__.py +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/disclaimer.txt +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/ChemstationMSFileReader.dll +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/ChemstationMSFileReader.xml +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/RawFileReaderLicense.doc +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/ThermoFisher.CommonCore.BackgroundSubtraction.dll +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/ThermoFisher.CommonCore.BackgroundSubtraction.xml +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/ThermoFisher.CommonCore.Data.dll +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/ThermoFisher.CommonCore.Data.xml +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/ThermoFisher.CommonCore.MassPrecisionEstimator.dll +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/ThermoFisher.CommonCore.MassPrecisionEstimator.xml +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/ThermoFisher.CommonCore.RawFileReader.dll +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/ThermoFisher.CommonCore.RawFileReader.xml +0 -0
- {CoreMS-2.2.1/corems/ms_peak/factory → CoreMS-3.0.0/ext_lib}/__init__.py +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/OpenMcdf.Extensions.dll +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/OpenMcdf.dll +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/OpenMcdf.xml +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/System.IO.FileSystem.AccessControl.dll +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/System.IO.FileSystem.AccessControl.xml +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/System.Security.AccessControl.dll +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/System.Security.AccessControl.xml +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/System.Security.Principal.Windows.dll +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/System.Security.Principal.Windows.xml +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/ThermoFisher.CommonCore.BackgroundSubtraction.dll +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/ThermoFisher.CommonCore.BackgroundSubtraction.xml +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/ThermoFisher.CommonCore.Data.dll +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/ThermoFisher.CommonCore.Data.xml +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/ThermoFisher.CommonCore.MassPrecisionEstimator.dll +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/ThermoFisher.CommonCore.MassPrecisionEstimator.xml +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/ThermoFisher.CommonCore.RawFileReader.dll +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/dotnet/ThermoFisher.CommonCore.RawFileReader.xml +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/ext_lib/version +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/setup.cfg +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/tests/test_calibration.py +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/tests/test_classification.py +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/tests/test_gcms.py +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/tests/test_mass_spectrum.py +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/tests/test_mass_spectrum_export_import.py +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/tests/test_molecular_formula.py +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/tests/test_molecular_formula_db_factory.py +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/tests/test_output.py +0 -0
- {CoreMS-2.2.1 → CoreMS-3.0.0}/tests/test_search_mass_list.py +0 -0
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## Available features
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***
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## Installation
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## Example for FT-ICR Data Processing
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<div align="left">
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## Available features
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### LC-MS Signal Processing, Molecular Formula Search and Assignment, and Spectral Similarity Searches
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- Two dimensional (m/z and retention time) peak picking using persistent homology
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- Smoothing, cetroid detection, and integration of extracted ion chromatograms
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- Peak shape metric calculations including half peak height, tailing factor, and dispersity index
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- MS1 deconvolution of mass features
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- Idenfitication of <sup>13</sup>C isotopes within the mass features
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- Compatibility with molecular formula searching on MS1 or MS2 spectra
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- Spectral search capability using entropy similarity
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***
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## Installation
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##
|
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## Example for FT-ICR Data Processing
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More examples can be found under the directory examples/scripts, examples/notebooks
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@@ -323,7 +335,7 @@ UML (unified modeling language) diagrams for Direct Infusion FT-MS and GC-MS cla
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If you use CoreMS in your work, please use the following citation:
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Version [
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Version [3.0.0 Release on GitHub](https://github.com/EMSL-Computing/CoreMS/releases/tag/v3.0.0), archived on Zenodo:
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__author__ = "Yuri E. Corilo"
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__version__ = "3.0.0"
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import time
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import os
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import sys
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import hashlib
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# Get the path to the README file
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readme_path = os.path.join(os.path.dirname(__file__), "..", "README.md")
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# Read the contents of the README file
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with open(readme_path, "r", encoding="utf-8") as readme_file:
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__doc__ = readme_file.read()
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def timeit(method):
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def timed(*args, **kw):
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ts = time.time()
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+
result = method(*args, **kw)
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te = time.time()
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+
if "log_time" in kw:
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name = kw.get("log_name", method.__name__.upper())
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+
kw["log_time"][name] = int((te - ts) * 1000)
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else:
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+
print("%r %2.2f ms" % (method.__name__, (te - ts) * 1000))
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return result
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return timed
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class SuppressPrints:
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def __enter__(self):
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self._original_stdout = sys.stdout
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sys.stdout = open(os.devnull, "w")
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def __exit__(self, exc_type, exc_val, exc_tb):
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sys.stdout.close()
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+
sys.stdout = self._original_stdout
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def chunks(lst, n):
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"""Yield successive n-sized chunks from lst."""
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+
for i in range(0, len(lst), n):
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+
yield lst[i : i + n]
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def corems_md5(fname):
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+
bytes_io = fname.open("rb").read()
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+
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50
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+
md5_returned = hashlib.sha256(bytes_io).hexdigest()
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+
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|
+
return "{}:{}".format("sha256", md5_returned)
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