LICENSE.txt
MANIFEST.in
README.md
pyproject.toml
alphadia/__init__.py
alphadia/cli.py
alphadia/exceptions.py
alphadia/fdr.py
alphadia/fdrexperimental.py
alphadia/features.py
alphadia/fragcomp.py
alphadia/grouping.py
alphadia/libtransform.py
alphadia/outputaccumulator.py
alphadia/outputtransform.py
alphadia/plexscoring.py
alphadia/quadrupole.py
alphadia/search_plan.py
alphadia/search_step.py
alphadia/utils.py
alphadia/validate.py
alphadia.egg-info/PKG-INFO
alphadia.egg-info/SOURCES.txt
alphadia.egg-info/dependency_links.txt
alphadia.egg-info/entry_points.txt
alphadia.egg-info/requires.txt
alphadia.egg-info/top_level.txt
alphadia/calibration/models.py
alphadia/calibration/property.py
alphadia/consensus/utils.py
alphadia/constants/default.yaml
alphadia/constants/keys.py
alphadia/constants/multistep.yaml
alphadia/constants/classifier/fa9945ae23db872d.pth
alphadia/data/alpharaw_wrapper.py
alphadia/data/bruker.py
alphadia/fdrx/base.py
alphadia/fdrx/plotting.py
alphadia/fdrx/stats.py
alphadia/fdrx/utils.py
alphadia/fdrx/models/__init__.py
alphadia/fdrx/models/logistic_regression.py
alphadia/fdrx/models/two_step_classifier.py
alphadia/numba/config.py
alphadia/numba/fft.py
alphadia/numba/fragments.py
alphadia/numba/numeric.py
alphadia/peakgroup/kernel.py
alphadia/peakgroup/search.py
alphadia/peakgroup/utils.py
alphadia/plotting/cycle.py
alphadia/plotting/debug.py
alphadia/plotting/utils.py
alphadia/scoring/utils.py
alphadia/transferlearning/metrics.py
alphadia/transferlearning/train.py
alphadia/utilities/__init__.py
alphadia/utilities/logging.py
alphadia/workflow/base.py
alphadia/workflow/config.py
alphadia/workflow/manager.py
alphadia/workflow/optimization.py
alphadia/workflow/peptidecentric.py
alphadia/workflow/reporting.py
alphadia/workflow/managers/__init__.py
alphadia/workflow/managers/raw_file_manager.py
docs/conf.py
misc/distributed_search/discover_project_files.py
misc/distributed_search/parse_parameters.py
misc/distributed_search/speclib_config.py
release/pyinstaller/cli_hook.py
release/pyinstaller/hookdir/hook-huggingface_hub.py
release/pyinstaller/hookdir/hook-rocket_fft.py
requirements/_requirements.freeze.txt
requirements/requirements.txt
requirements/requirements_development.txt
requirements/requirements_docs.txt
requirements/requirements_tests.txt