A package for denoising the noisy neural images using trained machine learning models. The supported models are summarized below:
| name | detail | Python | Matlab |
|---|---|---|---|
| nn | a trained neural network for denoising images [1] | √ | √ |
in the folder /python/, there is a ipynb file train_model_with_pinky40 file. This file includes code for model training and testing.
The trained model were saved into the folder /python/logs/*.onnx and /python/logs/*.pth for future use.
required packages
We created a MATLAB wrapper that loads the trained models (.onnx files) /matlab/NID.m. The file /matlab/demo_nid.m illustrates how to run the package.
- Pengcheng Zhou
- Amol Pasarkar
[1]. EASE :EM-AssistedSourceExtraction1fromcalciumimagingdata
Copyright 2018 Pengcheng Zhou
This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
You should have received a copy of the GNU General Public License along with this program. If not, see http://www.gnu.org/licenses/.