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Nuclei Localization Thresholding #36

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5676d77
Update io.py
smishra3 Sep 22, 2025
4d602e7
Update README.md
smishra3 Sep 22, 2025
b891ae8
Create README-v2.md
smishra3 Sep 23, 2025
242e0c1
Update README.md
smishra3 Sep 23, 2025
67f7cc5
Delete docs/quilt/README-v2.md
smishra3 Sep 23, 2025
3479c9d
merge resolve
mfs4rd Nov 21, 2025
bdcbddb
default colony mask output
mfs4rd Nov 6, 2025
bb67c53
README documentation for figure_generation code
mfs4rd Nov 6, 2025
0e9c602
Update README.md
mfs4rd Nov 7, 2025
3a05517
Update README.md
mfs4rd Nov 7, 2025
47e42d4
Update pdm.lock with latest changes from pyproject.toml
pgarrison Nov 7, 2025
51676c7
remove pymeshfix import
Nov 7, 2025
a67a26a
correct Data ID in nuclei localization
mfs4rd Nov 7, 2025
61c11c3
correcting camera alignment column name
mfs4rd Nov 10, 2025
1d904db
fix column name in feature extraction
mfs4rd Nov 10, 2025
c587332
remove absolute path
mfs4rd Nov 10, 2025
4314af8
README instructions assume user is in root folder of repo
mfs4rd Nov 10, 2025
ba6dbc1
threshold nuclei localization
mfs4rd Nov 21, 2025
600ecca
Merge branch 'reSub-v1' into reSub/nuc-threshold
mfs4rd Nov 21, 2025
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1 change: 1 addition & 0 deletions EMT_data_analysis/tools/io.py
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Expand Up @@ -27,6 +27,7 @@ def load_inside_outside_classification(load_from_aws: bool = True):
metric_comp_results_dir = get_results_directory_name() / "nuclei_localization"
path = metric_comp_results_dir / "Migration_timing_trough_mesh_extracted_features.csv"
df = pd.read_csv(path)
df = df[df['Z']<27]
return df

def get_results_directory_name():
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