ManualCellLabeler

Interactive Streamlit app for manual neuron label confirmation using NeuroPAL and related HDF5/CSV data.

Usage

• Activate project virtualenv (from project root):

source .venv/bin/activate

• Run the Streamlit app:

source .venv/bin/activate && streamlit run app.py

• Open the UI: visit http://localhost:<port_number> (Firefox is the recommended browser for this app)

Notes

• Default data root used by the app: /store1/shared/flv_utils_data/ (see FLV_UTILS_DATA_DIR in app.py).
• The app expects project subfolders with autolabel_data, neuron_rois, processed_h5, and labels_csv.

Deprecated scripts

• Some helper scripts are not required to launch the main app and have been moved to deprecated/.
• To restore a deprecated script, move it back to the project root.

Development

• Python >= 3.10. Use the included .venv for reproducible environment.
• Dependencies are listed in pyproject.toml.

Integrate relabels to labels_csv

python update_labels_from_log.py /store1/shared/flv_utils_data/flagging/relabelled/BAG_candy_log.csv --apply