MANIFEST.in
README.rst
setup.cfg
setup.py
ms_deisotope/__init__.py
ms_deisotope/averagine.py
ms_deisotope/constants.py
ms_deisotope/envelope_statistics.py
ms_deisotope/peak_set.py
ms_deisotope/plot.py
ms_deisotope/processor.py
ms_deisotope/scoring.py
ms_deisotope/spectrum_graph.py
ms_deisotope/utils.py
ms_deisotope/version.py
ms_deisotope.egg-info/PKG-INFO
ms_deisotope.egg-info/SOURCES.txt
ms_deisotope.egg-info/dependency_links.txt
ms_deisotope.egg-info/entry_points.txt
ms_deisotope.egg-info/not-zip-safe
ms_deisotope.egg-info/requires.txt
ms_deisotope.egg-info/top_level.txt
ms_deisotope/_c/averagine.c
ms_deisotope/_c/deconvoluter_base.c
ms_deisotope/_c/peak_set.c
ms_deisotope/_c/scoring.c
ms_deisotope/_c/similarity_methods.c
ms_deisotope/_c/spectrum_graph.c
ms_deisotope/_c/utils.c
ms_deisotope/_c/feature_map/feature_fit.c
ms_deisotope/_c/feature_map/feature_map.c
ms_deisotope/_c/feature_map/feature_processor.c
ms_deisotope/_c/feature_map/lcms_feature.c
ms_deisotope/_c/feature_map/profile_transform.c
ms_deisotope/_c/feature_map/shape_fitter.c
ms_deisotope/_c/peak_dependency_network/intervals.c
ms_deisotope/_c/peak_dependency_network/peak_network.c
ms_deisotope/_c/peak_dependency_network/subgraph.c
ms_deisotope/_c/__init__.py
ms_deisotope/_c/averagine.c
ms_deisotope/_c/averagine.pxd
ms_deisotope/_c/averagine.pyx
ms_deisotope/_c/deconvoluter_base.c
ms_deisotope/_c/deconvoluter_base.pxd
ms_deisotope/_c/deconvoluter_base.pyx
ms_deisotope/_c/peak_set.c
ms_deisotope/_c/peak_set.pxd
ms_deisotope/_c/peak_set.pyx
ms_deisotope/_c/scoring.c
ms_deisotope/_c/scoring.pxd
ms_deisotope/_c/scoring.pyx
ms_deisotope/_c/similarity_methods.c
ms_deisotope/_c/similarity_methods.pyx
ms_deisotope/_c/spectrum_graph.c
ms_deisotope/_c/spectrum_graph.pxd
ms_deisotope/_c/spectrum_graph.pyx
ms_deisotope/_c/utils.c
ms_deisotope/_c/utils.pxd
ms_deisotope/_c/utils.pyx
ms_deisotope/_c/feature_map/__init__.py
ms_deisotope/_c/feature_map/feature_fit.c
ms_deisotope/_c/feature_map/feature_fit.pxd
ms_deisotope/_c/feature_map/feature_fit.pyx
ms_deisotope/_c/feature_map/feature_map.c
ms_deisotope/_c/feature_map/feature_map.pxd
ms_deisotope/_c/feature_map/feature_map.pyx
ms_deisotope/_c/feature_map/feature_processor.c
ms_deisotope/_c/feature_map/feature_processor.pyx
ms_deisotope/_c/feature_map/lcms_feature.c
ms_deisotope/_c/feature_map/lcms_feature.pxd
ms_deisotope/_c/feature_map/lcms_feature.pyx
ms_deisotope/_c/feature_map/profile_transform.c
ms_deisotope/_c/feature_map/profile_transform.pyx
ms_deisotope/_c/feature_map/shape_fitter.c
ms_deisotope/_c/feature_map/shape_fitter.pxd
ms_deisotope/_c/feature_map/shape_fitter.pyx
ms_deisotope/_c/peak_dependency_network/__init__.py
ms_deisotope/_c/peak_dependency_network/intervals.c
ms_deisotope/_c/peak_dependency_network/intervals.pxd
ms_deisotope/_c/peak_dependency_network/intervals.pyx
ms_deisotope/_c/peak_dependency_network/peak_network.c
ms_deisotope/_c/peak_dependency_network/peak_network.pxd
ms_deisotope/_c/peak_dependency_network/peak_network.pyx
ms_deisotope/_c/peak_dependency_network/subgraph.c
ms_deisotope/_c/peak_dependency_network/subgraph.pxd
ms_deisotope/_c/peak_dependency_network/subgraph.pyx
ms_deisotope/clustering/__init__.py
ms_deisotope/clustering/peak_clustering.py
ms_deisotope/clustering/scan_clustering.py
ms_deisotope/clustering/similarity_methods.py
ms_deisotope/data_source/__init__.py
ms_deisotope/data_source/_compression.py
ms_deisotope/data_source/_thermo_helper.py
ms_deisotope/data_source/agilent_d.py
ms_deisotope/data_source/common.py
ms_deisotope/data_source/dispatch.py
ms_deisotope/data_source/infer_type.py
ms_deisotope/data_source/memory.py
ms_deisotope/data_source/mgf.py
ms_deisotope/data_source/mzml.py
ms_deisotope/data_source/mzxml.py
ms_deisotope/data_source/thermo_raw.py
ms_deisotope/data_source/thermo_raw_net.py
ms_deisotope/data_source/xml_reader.py
ms_deisotope/data_source/_vendor/AgilentD.py
ms_deisotope/data_source/_vendor/AgilentD.pyc
ms_deisotope/data_source/_vendor/MSFileReader.py
ms_deisotope/data_source/_vendor/MSFileReader.pyc
ms_deisotope/data_source/_vendor/__init__.py
ms_deisotope/data_source/_vendor/__init__.pyc
ms_deisotope/data_source/_vendor/ThermoRawFileReader_3_0_41/Libraries/ThermoFisher.CommonCore.BackgroundSubtraction.dll
ms_deisotope/data_source/_vendor/ThermoRawFileReader_3_0_41/Libraries/ThermoFisher.CommonCore.Data.dll
ms_deisotope/data_source/_vendor/ThermoRawFileReader_3_0_41/Libraries/ThermoFisher.CommonCore.MassPrecisionEstimator.dll
ms_deisotope/data_source/_vendor/ThermoRawFileReader_3_0_41/Libraries/ThermoFisher.CommonCore.RawFileReader.dll
ms_deisotope/data_source/_vendor/ThermoRawFileReader_3_0_41/License/RawFileRdr_License_Agreement_RevA.doc
ms_deisotope/data_source/_vendor/__pycache__/AgilentD.cpython-35.pyc
ms_deisotope/data_source/_vendor/__pycache__/AgilentD.cpython-36.pyc
ms_deisotope/data_source/_vendor/__pycache__/MSFileReader.cpython-35.pyc
ms_deisotope/data_source/_vendor/__pycache__/MSFileReader.cpython-36.pyc
ms_deisotope/data_source/_vendor/__pycache__/__init__.cpython-35.pyc
ms_deisotope/data_source/_vendor/__pycache__/__init__.cpython-36.pyc
ms_deisotope/data_source/metadata/__init__.py
ms_deisotope/data_source/metadata/activation.py
ms_deisotope/data_source/metadata/cv.py
ms_deisotope/data_source/metadata/data_transformation.py
ms_deisotope/data_source/metadata/file_information.py
ms_deisotope/data_source/metadata/instrument_components.py
ms_deisotope/data_source/metadata/sample.py
ms_deisotope/data_source/metadata/scan_traits.py
ms_deisotope/data_source/metadata/software.py
ms_deisotope/data_source/scan/__init__.py
ms_deisotope/data_source/scan/base.py
ms_deisotope/data_source/scan/loader.py
ms_deisotope/data_source/scan/proxy.py
ms_deisotope/data_source/scan/scan.py
ms_deisotope/data_source/scan/scan_iterator.py
ms_deisotope/deconvolution/__init__.py
ms_deisotope/deconvolution/api.py
ms_deisotope/deconvolution/averagine_based.py
ms_deisotope/deconvolution/base.py
ms_deisotope/deconvolution/composition_list.py
ms_deisotope/deconvolution/exhaustive.py
ms_deisotope/deconvolution/hybrid.py
ms_deisotope/deconvolution/peak_retention_strategy.py
ms_deisotope/deconvolution/utils.py
ms_deisotope/feature_map/__init__.py
ms_deisotope/feature_map/dependence_network.py
ms_deisotope/feature_map/feature_fit.py
ms_deisotope/feature_map/feature_map.py
ms_deisotope/feature_map/feature_processor.py
ms_deisotope/feature_map/feature_relationships.py
ms_deisotope/feature_map/lcms_feature.py
ms_deisotope/feature_map/map_viz.py
ms_deisotope/feature_map/profile_transform.py
ms_deisotope/feature_map/quick_index.py
ms_deisotope/feature_map/scan_index.py
ms_deisotope/feature_map/scan_interval_tree.py
ms_deisotope/feature_map/shape_fitter.py
ms_deisotope/output/__init__.py
ms_deisotope/output/common.py
ms_deisotope/output/mgf.py
ms_deisotope/output/ms2.py
ms_deisotope/output/mzml.py
ms_deisotope/output/text.py
ms_deisotope/output/text_utils.py
ms_deisotope/peak_dependency_network/__init__.py
ms_deisotope/peak_dependency_network/interval_viz.py
ms_deisotope/peak_dependency_network/intervals.py
ms_deisotope/peak_dependency_network/peak_network.py
ms_deisotope/peak_dependency_network/subgraph.py
ms_deisotope/peak_dependency_network/utils.py
ms_deisotope/qc/__init__.py
ms_deisotope/qc/delta.py
ms_deisotope/qc/heuristic.py
ms_deisotope/qc/isolation.py
ms_deisotope/qc/signature.py
ms_deisotope/task/__init__.py
ms_deisotope/task/log_utils.py
ms_deisotope/task/task.py
ms_deisotope/test/__init__.py
ms_deisotope/test/common.py
ms_deisotope/test/test_activation_metadata.py
ms_deisotope/test/test_averagine.py
ms_deisotope/test/test_cv.py
ms_deisotope/test/test_deconvolute.py
ms_deisotope/test/test_file_information.py
ms_deisotope/test/test_index.py
ms_deisotope/test/test_infer_type.py
ms_deisotope/test/test_integration.py
ms_deisotope/test/test_intervals.py
ms_deisotope/test/test_memory_source.py
ms_deisotope/test/test_mgf.py
ms_deisotope/test/test_mzml.py
ms_deisotope/test/test_mzml_writer.py
ms_deisotope/test/test_mzxml.py
ms_deisotope/test/test_peak_set.py
ms_deisotope/test/test_processor.py
ms_deisotope/test/test_qc.py
ms_deisotope/test/test_scan.py
ms_deisotope/test/test_scan_clustering.py
ms_deisotope/test/test_scan_traits.py
ms_deisotope/test/test_scoring.py
ms_deisotope/test/test_thermo_raw.py
ms_deisotope/test/test_tools.py
ms_deisotope/tools/__init__.py
ms_deisotope/tools/conversion.py
ms_deisotope/tools/draw.py
ms_deisotope/tools/indexing.py
ms_deisotope/tools/utils.py
ms_deisotope/tools/view.py
ms_deisotope/tools/deisotoper/__init__.py
ms_deisotope/tools/deisotoper/collator.py
ms_deisotope/tools/deisotoper/main.py
ms_deisotope/tools/deisotoper/output.py
ms_deisotope/tools/deisotoper/process.py
ms_deisotope/tools/deisotoper/scan_generator.py
ms_deisotope/tools/deisotoper/workflow.py