LICENSE
MANIFEST.in
README.md
pyproject.toml
requirements.txt
setup.py
MSIght/__init__.py
MSIght/launch_advanced_notebook.py
MSIght/launch_basic_notebook.py
MSIght/refactor_affine_transform.py
MSIght/refactor_bspline.py
MSIght/refactor_cluster_optimize.py
MSIght/refactor_common_functions.py
MSIght/refactor_fragger_process.py
MSIght/refactor_he_lcmsms_msi_merge.py
MSIght/refactor_histology_preprocess.py
MSIght/refactor_interpolation.py
MSIght/refactor_manual_affine.py
MSIght/refactor_manual_affine_transform.py
MSIght/refactor_mz_image_extract.py
MSIght/refactor_segment.py
MSIght/run_pytest.py
MSIght.egg-info/PKG-INFO
MSIght.egg-info/SOURCES.txt
MSIght.egg-info/dependency_links.txt
MSIght.egg-info/entry_points.txt
MSIght.egg-info/requires.txt
MSIght.egg-info/top_level.txt
MSIght/__pycache__/__init__.cpython-39.pyc
MSIght/__pycache__/refactor_affine_transform.cpython-39.pyc
MSIght/__pycache__/refactor_bspline.cpython-39.pyc
MSIght/__pycache__/refactor_cluster_optimize.cpython-39.pyc
MSIght/__pycache__/refactor_common_functions.cpython-39.pyc
MSIght/__pycache__/refactor_histology_preprocess.cpython-39.pyc
MSIght/__pycache__/refactor_interpolation.cpython-39.pyc
MSIght/__pycache__/refactor_manual_affine.cpython-39.pyc
MSIght/__pycache__/refactor_segment.cpython-39.pyc
notebooks/__init__.py
notebooks/advanced_workflow.ipynb
notebooks/basic_workflow.ipynb
notebooks/.ipynb_checkpoints/advanced_workflow-checkpoint.ipynb
notebooks/.ipynb_checkpoints/basic_workflow-checkpoint.ipynb
notebooks/MSIght_Jupyter/__init__.py
notebooks/MSIght_Jupyter/refactor_affine_transform.py
notebooks/MSIght_Jupyter/refactor_bspline.py
notebooks/MSIght_Jupyter/refactor_cluster_optimize.py
notebooks/MSIght_Jupyter/refactor_common_functions.py
notebooks/MSIght_Jupyter/refactor_fragger_process.py
notebooks/MSIght_Jupyter/refactor_he_lcmsms_msi_merge.py
notebooks/MSIght_Jupyter/refactor_histology_preprocess.py
notebooks/MSIght_Jupyter/refactor_interpolation.py
notebooks/MSIght_Jupyter/refactor_manual_affine.py
notebooks/MSIght_Jupyter/refactor_manual_affine_transform.py
notebooks/MSIght_Jupyter/refactor_mz_image_extract.py
notebooks/MSIght_Jupyter/refactor_segment.py
notebooks/MSIght_Jupyter/run_pytest.py
notebooks/MSIght_Jupyter/__pycache__/__init__.cpython-39.pyc
notebooks/MSIght_Jupyter/__pycache__/refactor_affine_transform.cpython-39.pyc
notebooks/MSIght_Jupyter/__pycache__/refactor_bspline.cpython-39.pyc
notebooks/MSIght_Jupyter/__pycache__/refactor_cluster_optimize.cpython-39.pyc
notebooks/MSIght_Jupyter/__pycache__/refactor_common_functions.cpython-39.pyc
notebooks/MSIght_Jupyter/__pycache__/refactor_fragger_process.cpython-39.pyc
notebooks/MSIght_Jupyter/__pycache__/refactor_histology_preprocess.cpython-39.pyc
notebooks/MSIght_Jupyter/__pycache__/refactor_interpolation.cpython-39.pyc
notebooks/MSIght_Jupyter/__pycache__/refactor_manual_affine.cpython-39.pyc
notebooks/MSIght_Jupyter/__pycache__/refactor_manual_affine_transform.cpython-39.pyc
notebooks/MSIght_Jupyter/__pycache__/refactor_segment.cpython-39.pyc
notebooks/example_data/__init__.py
notebooks/example_data/prostate_example.ibd
notebooks/example_data/prostate_example.imzML
notebooks/example_data/prostate_he_example.tif
notebooks/example_data/MSFragger_output/__init__.py
notebooks/example_data/MSFragger_output/fragger.params
notebooks/example_data/MSFragger_output/fragpipe-files.fp-manifest
notebooks/example_data/MSFragger_output/fragpipe.workflow
notebooks/example_data/MSFragger_output/ion.tsv
notebooks/example_data/MSFragger_output/peptide.tsv
notebooks/example_data/MSFragger_output/protein.tsv
notebooks/example_data/MSFragger_output/psm.tsv
notebooks/example_data/MSFragger_output/results_for_MSIght.csv
tests/__init__.py
tests/test_refactor_affine_transform.py
tests/test_refactor_bspline.py
tests/test_refactor_cluster_optimize.py
tests/test_refactor_common_functions.py
tests/test_refactor_histology_preprocess.py
tests/test_refactor_interpolation.py
tests/test_refactor_manual_affine.py
tests/test_segment_refactored.py