Python package for documenting all the functions used in auxilin prediction.

predicting auxilin spikes in clathrin-mediated endocytosis

quickstart for making new predictions

• our fully trained model is available in the models folder

reproducibility

• download data: download cached data after tracking from this gdrive folder - should be added to the folder data/tracks
• process data: run python data.py to properly preprocess all the data (will cache it into the "processed folder")
• rerun analysis: notebooks folder contains step-by-step analysis
• tests: run tests with pytest in the tests folder

acknowledgements

• this is a collaboration between the Berkeley Yu-Group and the Berkeley Advanced Bioimaging Center
• uses code from several wonderful packages including cmeAnalysis (DanuserLab)

"""
Python package for documenting all the functions used in auxilin prediction.
.. include:: ../readme.md
"""

Sub-modules

src.analyze_helper

src.config

Set configurations for all the raw and processed datasets Takes in path to raw data, tracks, processed df, and then later interim data

src.data

src.features

src.interpret

src.load_tracking

src.models

src.neural_networks

src.outcomes

src.ref

src.train

src.train_reg

src.trend_filtering

src.viz