caliban: Calcium Imaging and Behavior Analysis
...in dreaming,
The clouds methought would open, and show riches
Ready to drop upon me; that, when I waked,
I cried to dream again.
The Tempest, Act III, Scene ii
Twinkling calcium imaging videos are certainly filled with riches. Whereas Caliban is showered with riches in his slumber, we must dig a little harder to mine these datasets. This software was developed to assist fellow wayward travelers on their journey to understanding how neurons encode information.
This code base was written with the intention of serving as a toolbox for:
- Statistical Testing of neuron classification by behavior.
- Visualization of neural activity and behavior data
- Graph Theoretical Analysis of networks of neurons.
- Data Visualization tool -- see the "full picture" of the data garnered from experiments with integration of calcium imaging movies, behavioral videos, and data processing results.
- processing behavior data with Google Colab notebooks
For any feature requests, create an issue.
Getting Started on Google Colab
The package can be run on Google Colab in the following ways
!pip install jb-caliban
for developers:
git clone -b dlc_pypi https://<your_github_token>@github.com/GergelyTuri/caliban.git
%cd caliban
!git pull
!pip install .
Troubleshooting
1 maintainer
Release files for jb-caliban 0.0.16
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| jb-caliban-0.0.16.tar.gz | 146.0 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| jb_caliban-0.0.16-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 303.6 kB
Release files / jb-caliban-0.0.16.tar.gz
| Download URL | jb-caliban-0.0.16.tar.gz |
|---|---|
| Size | 146.0 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
fa35dac491c248d60f22c09fec62f980e3d5900c5a49eff60f674b379f21c14c
|
|
BLAKE2b-256 checksum How to use checksums |
8a7edc0c433d9fe7db213fd63f1a61178972bea93563b9a0f6d6573670fad598
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/3.7.1 importlib_metadata/4.8.1 pkginfo/1.8.2 requests/2.26.0 requests-toolbelt/0.9.1 tqdm/4.62.3 CPython/3.6.9
|
Release files / jb_caliban-0.0.16-py3-none-any.whl
| Download URL | jb_caliban-0.0.16-py3-none-any.whl |
|---|---|
| Size | 157.6 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
891c4e08b3a84d8db33f211403aa262dad6952db90a5d491614d3dbfbe813cf2
|
|
BLAKE2b-256 checksum How to use checksums |
d654f26a6fd694ce51eeb28eb63a32eb7fc26a593b81a99d058261107b9e0818
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/3.7.1 importlib_metadata/4.8.1 pkginfo/1.8.2 requests/2.26.0 requests-toolbelt/0.9.1 tqdm/4.62.3 CPython/3.6.9
|
