Skip to content

Commit

Permalink
final edit
Browse files Browse the repository at this point in the history
  • Loading branch information
milesAraya committed Feb 13, 2025
1 parent 1d65e42 commit 9a8a699
Showing 1 changed file with 21 additions and 22 deletions.
43 changes: 21 additions & 22 deletions README.md
Original file line number Diff line number Diff line change
Expand Up @@ -33,34 +33,22 @@ OptiNiSt helps researchers try multiple data analysis methods, visualize the res

OptiNiSt also supports reproducibility of scientific research, standardization of analysis protocols, and developments of novel analysis tools as plug-in.

<div style="display: grid; grid-template-columns: 1fr auto; gap: 20px; align-items: start;">
<div>
### Support Library

## Support library

### ROI detection
#### ROI detection
- [x] [Suite2p](https://github.com/MouseLand/suite2p)
- [x] [CaImAn](https://github.com/flatironinstitute/CaImAn)
- [x] [LCCD](https://github.com/magnetizedCell/lccd-python)

### Postprocessing
- [x] Basic Neural Analysis(Event Trigger Average...)
- [x] Dimension Reduction(PCA...)
- [x] Neural Decoding(LDA...)
- [x] Neural Population Analysis(Correlation...)
#### Postprocessing
- [x] Basic Neural Analysis (Event Trigger Average...)
- [x] Dimension Reduction (PCA...)
- [x] Neural Decoding (LDA...)
- [x] Neural Population Analysis (Correlation...)

### Saving Format
#### Saving Format
- [x] [NWB](https://github.com/NeurodataWithoutBorders/pynwb)

</div>

<div style="align-self: start; text-align: right;">
<h2>Read our paper</h2>
<img src="docs/_static/paper_QR.png" width="150" title="Read our paper" alt="QR code">
</div>

</div>

## Key Features

### :beginner: Easy-To-Create Workflow
Expand Down Expand Up @@ -146,9 +134,20 @@ Kenji Doya, Yukako Yamane [OIST Neural Computation Unit](https://groups.oist.jp/
[[LCCD]](https://github.com/magnetizedCell/lccd-python) Tsubasa Ito, Keisuke Ota, Kanako Ueno, Yasuhiro Oisi, Chie Matsubara, Kenta Kobayashi, Masamichi Ohkura, Junichi Nakai, Masanori Murayama, Toru Aonishi, "Low computational-cost cell detection method for calcium imaging data", 2022
[[PyNWB]](https://github.com/NeurodataWithoutBorders/pynwb) Oliver Rübel, Andrew Tritt, Ryan Ly, Benjamin K. Dichter, Satrajit Ghosh, Lawrence Niu, Ivan Soltesz, Karel Svoboda, Loren Frank, Kristofer E. Bouchard, "The Neurodata Without Borders ecosystem for neurophysiological data science", bioRxiv 2021.03.13.435173, March 15, 2021



## Citation
<table width="100%">
<tr>
<td valign="top" width="50%">
If you use this software, please cite our paper:
[https://www.biorxiv.org/content/10.1101/2024.09.17.613603v1](https://www.biorxiv.org/content/10.1101/2024.09.17.613603v1)
<a href="https://www.biorxiv.org/content/10.1101/2024.09.17.613603v1">https://www.biorxiv.org/content/10.1101/2024.09.17.613603v1</a>
</td>
<td valign="top" width="50%" align="right">
<img src="docs/_static/paper_QR.png" alt="Read our paper" width="150">
</td>
</tr>
</table>

```
@misc{OptiNiSt,
Expand All @@ -160,4 +159,4 @@ If you use this software, please cite our paper:
journal = {bioRxiv}
publisher = {Cold Spring Harbor Laboratory},
}
```
```

0 comments on commit 9a8a699

Please sign in to comment.