CONTRIBUTING.md
LICENSE
MANIFEST.in
README.md
pyproject.toml
setup.cfg
setup.py
aicssegmentation/__init__.py
aicssegmentation.egg-info/PKG-INFO
aicssegmentation.egg-info/SOURCES.txt
aicssegmentation.egg-info/dependency_links.txt
aicssegmentation.egg-info/entry_points.txt
aicssegmentation.egg-info/not-zip-safe
aicssegmentation.egg-info/requires.txt
aicssegmentation.egg-info/top_level.txt
aicssegmentation/assets/diagrams/actb.png
aicssegmentation/assets/diagrams/actn1.png
aicssegmentation/assets/diagrams/atp2a2.png
aicssegmentation/assets/diagrams/cetn2.png
aicssegmentation/assets/diagrams/ctnnb1.png
aicssegmentation/assets/diagrams/dsp.png
aicssegmentation/assets/diagrams/fbl.png
aicssegmentation/assets/diagrams/gja1.png
aicssegmentation/assets/diagrams/h2b_interphase.png
aicssegmentation/assets/diagrams/lamp1.png
aicssegmentation/assets/diagrams/lmnb1_interphase.png
aicssegmentation/assets/diagrams/lmnb1_mitotic.png
aicssegmentation/assets/diagrams/myh10.png
aicssegmentation/assets/diagrams/npm1.png
aicssegmentation/assets/diagrams/nup153.png
aicssegmentation/assets/diagrams/pxn.png
aicssegmentation/assets/diagrams/rab5a.png
aicssegmentation/assets/diagrams/sec61b.png
aicssegmentation/assets/diagrams/slc25a17.png
aicssegmentation/assets/diagrams/smc1a.png
aicssegmentation/assets/diagrams/son.png
aicssegmentation/assets/diagrams/st6gal1.png
aicssegmentation/assets/diagrams/tjp1.png
aicssegmentation/assets/diagrams/tomm20.png
aicssegmentation/assets/diagrams/tuba1b.png
aicssegmentation/assets/thumbnails/actb_post.png
aicssegmentation/assets/thumbnails/actb_pre.png
aicssegmentation/assets/thumbnails/actn1_post.png
aicssegmentation/assets/thumbnails/actn1_pre.png
aicssegmentation/assets/thumbnails/atp2a2_post.png
aicssegmentation/assets/thumbnails/atp2a2_pre.png
aicssegmentation/assets/thumbnails/cetn2_post.png
aicssegmentation/assets/thumbnails/cetn2_pre.png
aicssegmentation/assets/thumbnails/ctnnb1_post.png
aicssegmentation/assets/thumbnails/ctnnb1_pre.png
aicssegmentation/assets/thumbnails/dsp_post.png
aicssegmentation/assets/thumbnails/dsp_pre.png
aicssegmentation/assets/thumbnails/fbl_post.png
aicssegmentation/assets/thumbnails/fbl_pre.png
aicssegmentation/assets/thumbnails/gja1_post.png
aicssegmentation/assets/thumbnails/gja1_pre.png
aicssegmentation/assets/thumbnails/h2b_interphase_post.png
aicssegmentation/assets/thumbnails/h2b_interphase_pre.png
aicssegmentation/assets/thumbnails/lamp1_post.png
aicssegmentation/assets/thumbnails/lamp1_pre.png
aicssegmentation/assets/thumbnails/lmnb1_interphase_post.png
aicssegmentation/assets/thumbnails/lmnb1_interphase_pre.png
aicssegmentation/assets/thumbnails/lmnb1_mitotic_post.png
aicssegmentation/assets/thumbnails/lmnb1_mitotic_pre.png
aicssegmentation/assets/thumbnails/myh10_post.png
aicssegmentation/assets/thumbnails/myh10_pre.png
aicssegmentation/assets/thumbnails/npm1_post.png
aicssegmentation/assets/thumbnails/npm1_pre.png
aicssegmentation/assets/thumbnails/nup153_post.png
aicssegmentation/assets/thumbnails/nup153_pre.png
aicssegmentation/assets/thumbnails/pxn_post.png
aicssegmentation/assets/thumbnails/pxn_pre.png
aicssegmentation/assets/thumbnails/rab5a_post.png
aicssegmentation/assets/thumbnails/rab5a_pre.png
aicssegmentation/assets/thumbnails/sec61b_post.png
aicssegmentation/assets/thumbnails/sec61b_pre.png
aicssegmentation/assets/thumbnails/slc25a17_post.png
aicssegmentation/assets/thumbnails/slc25a17_pre.png
aicssegmentation/assets/thumbnails/smc1a_post.png
aicssegmentation/assets/thumbnails/smc1a_pre.png
aicssegmentation/assets/thumbnails/son_post.png
aicssegmentation/assets/thumbnails/son_pre.png
aicssegmentation/assets/thumbnails/st6gal1_post.png
aicssegmentation/assets/thumbnails/st6gal1_pre.png
aicssegmentation/assets/thumbnails/tjp1_post.png
aicssegmentation/assets/thumbnails/tjp1_pre.png
aicssegmentation/assets/thumbnails/tomm20_post.png
aicssegmentation/assets/thumbnails/tomm20_pre.png
aicssegmentation/assets/thumbnails/tuba1b_post.png
aicssegmentation/assets/thumbnails/tuba1b_pre.png
aicssegmentation/bin/__init__.py
aicssegmentation/bin/batch_processing.py
aicssegmentation/cli/__init__.py
aicssegmentation/cli/to_analysis.py
aicssegmentation/core/MO_threshold.py
aicssegmentation/core/__init__.py
aicssegmentation/core/hessian.py
aicssegmentation/core/output_utils.py
aicssegmentation/core/pre_processing_utils.py
aicssegmentation/core/seg_dot.py
aicssegmentation/core/utils.py
aicssegmentation/core/vessel.py
aicssegmentation/core/visual.py
aicssegmentation/structure_wrapper/__init__.py
aicssegmentation/structure_wrapper/seg_actb.py
aicssegmentation/structure_wrapper/seg_actn1.py
aicssegmentation/structure_wrapper/seg_atp2a2.py
aicssegmentation/structure_wrapper/seg_cardio_actn2.py
aicssegmentation/structure_wrapper/seg_cardio_atp2a2.py
aicssegmentation/structure_wrapper/seg_cardio_fbl.py
aicssegmentation/structure_wrapper/seg_cardio_fbl_100x.py
aicssegmentation/structure_wrapper/seg_cardio_myl7.py
aicssegmentation/structure_wrapper/seg_cardio_npm1.py
aicssegmentation/structure_wrapper/seg_cardio_npm1_100x.py
aicssegmentation/structure_wrapper/seg_cardio_tnni1.py
aicssegmentation/structure_wrapper/seg_cardio_ttn.py
aicssegmentation/structure_wrapper/seg_cetn2.py
aicssegmentation/structure_wrapper/seg_ctnnb1.py
aicssegmentation/structure_wrapper/seg_drug_npm1.py
aicssegmentation/structure_wrapper/seg_dsp.py
aicssegmentation/structure_wrapper/seg_fbl.py
aicssegmentation/structure_wrapper/seg_fbl_labelfree_4dn.py
aicssegmentation/structure_wrapper/seg_gja1.py
aicssegmentation/structure_wrapper/seg_h2b_interphase.py
aicssegmentation/structure_wrapper/seg_lamp1.py
aicssegmentation/structure_wrapper/seg_lmnb1_interphase.py
aicssegmentation/structure_wrapper/seg_lmnb1_mitotic.py
aicssegmentation/structure_wrapper/seg_myh10.py
aicssegmentation/structure_wrapper/seg_npm1.py
aicssegmentation/structure_wrapper/seg_npm1_SR.py
aicssegmentation/structure_wrapper/seg_npm_labelfree_4dn.py
aicssegmentation/structure_wrapper/seg_nup153.py
aicssegmentation/structure_wrapper/seg_pxn.py
aicssegmentation/structure_wrapper/seg_rab5a.py
aicssegmentation/structure_wrapper/seg_sec61b.py
aicssegmentation/structure_wrapper/seg_sec61b_dual.py
aicssegmentation/structure_wrapper/seg_slc25a17.py
aicssegmentation/structure_wrapper/seg_smc1a.py
aicssegmentation/structure_wrapper/seg_son.py
aicssegmentation/structure_wrapper/seg_st6gal1.py
aicssegmentation/structure_wrapper/seg_template.py
aicssegmentation/structure_wrapper/seg_tjp1.py
aicssegmentation/structure_wrapper/seg_tomm20.py
aicssegmentation/structure_wrapper/seg_tuba1b.py
aicssegmentation/structure_wrapper/seg_ubtf.py
aicssegmentation/structure_wrapper/structure_segmenter.py
aicssegmentation/structure_wrapper_config/__init__.py
aicssegmentation/structure_wrapper_config/all_functions.json
aicssegmentation/structure_wrapper_config/conf_actb.json
aicssegmentation/structure_wrapper_config/conf_actn1.json
aicssegmentation/structure_wrapper_config/conf_atp2a2.json
aicssegmentation/structure_wrapper_config/conf_cetn2.json
aicssegmentation/structure_wrapper_config/conf_ctnnb1.json
aicssegmentation/structure_wrapper_config/conf_dsp.json
aicssegmentation/structure_wrapper_config/conf_fbl.json
aicssegmentation/structure_wrapper_config/conf_gja1.json
aicssegmentation/structure_wrapper_config/conf_h2b_interphase.json
aicssegmentation/structure_wrapper_config/conf_lamp1.json
aicssegmentation/structure_wrapper_config/conf_lmnb1_interphase.json
aicssegmentation/structure_wrapper_config/conf_lmnb1_mitotic.json
aicssegmentation/structure_wrapper_config/conf_myh10.json
aicssegmentation/structure_wrapper_config/conf_npm1.json
aicssegmentation/structure_wrapper_config/conf_nup153.json
aicssegmentation/structure_wrapper_config/conf_pxn.json
aicssegmentation/structure_wrapper_config/conf_rab5a.json
aicssegmentation/structure_wrapper_config/conf_sec61b.json
aicssegmentation/structure_wrapper_config/conf_slc25a17.json
aicssegmentation/structure_wrapper_config/conf_smc1a.json
aicssegmentation/structure_wrapper_config/conf_son.json
aicssegmentation/structure_wrapper_config/conf_st6gal1.json
aicssegmentation/structure_wrapper_config/conf_tjp1.json
aicssegmentation/structure_wrapper_config/conf_tomm20.json
aicssegmentation/structure_wrapper_config/conf_tuba1b.json
aicssegmentation/util/__init__.py
aicssegmentation/util/directories.py
aicssegmentation/util/lazy.py
aicssegmentation/workflow/__init__.py
aicssegmentation/workflow/segmenter_function.py
aicssegmentation/workflow/structure_wrapper_config.py
aicssegmentation/workflow/workflow.py
aicssegmentation/workflow/workflow_definition.py
aicssegmentation/workflow/workflow_engine.py
aicssegmentation/workflow/workflow_step.py
docs/Makefile
docs/conf.py
docs/contributing.rst
docs/doc.rst
docs/full.jpg
docs/full_mem.jpg
docs/full_str.jpg
docs/index.rst
docs/installation.rst
docs/make.bat
docs/rab5a_raw.jpg
docs/step1.jpg
docs/step2.jpg
docs/step3_p1.jpg
docs/step3_p2.jpg