/LBGN

Supervisors: Dr. Patrick Piantadosi and Dr. Andrew Holmes

Primary LanguageJupyter Notebook

--THIS ORIGINAL REPO WAS DISCONTINUED DUE TO GIT ISSUES IN PUSHING (see LBGN3) :( --

Laboratory of Behavioral and Genomic Neuroscience

Supervisors: Dr. Patrick Piantadosi and Dr. Andrew Holmes

TODO Streams

  1. Decoding
  2. Including DLC
  3. Include activity tracking in addition to responsiveness tracking
  4. BORIS Matlab to BORIS python for approach abort data
  5. Similarity map (DTW/Pearson corr) --> Decoders --> Interpretation Models
  6. Including DLC --> how is movement alone impacting our analyses?
  7. Include Progressive Ratio Sessions into database

SUGGESTIONS

  1. Do significance analysis on the difference for the stacked plot.

BUGS

  1. I thought i fixed the truncation error, but it came back again? Need to make this fix simpler
    1. Just trim to 200 and that's it

Main Project: ISX-ABET-DLC Pipeline

ISX-ABET-DLC is a Python library for extracting, preprocessing, aligning, and analyzing calcium activity data, behavioral data, and positional data using Inscopix (ISX), Animal Behavior Environment Test (ABET), and DeepLabCut (DLC) with 1-photon imaging data in mind.

Installation

Use the package manager pip to install ISX-ABET-DLC.

pip install ISX-ABET-DLC

Usage

import ISX-ABET-DLC

Contributing

Pull requests are welcome. For major changes, please open an issue first to discuss what you would like to change.

Please make sure to update tests as appropriate.

License

MIT

Subprojects:

Aligning Big Brains & Atlases (ABBA), Merging Video Files