A Matlab toolbox for calcium imaging data analysis.
neuRoi
Many of the neuRoi functions are from the ROIing toolbox developed by Peter Rupprecht.
Download the source code. Then add the directory of the source code to MATLAB path. Note that you do not need to include sub-folders in the path. Required MATLAB packages:
- DSP System Toolbox
- Image Processing Toolbox
- Curve Fitting Toolbox
Wiki page of this tool box can be found here wiki page.
Demos can be found in the /demos folder. First run preprocess.m for data preprocessing. Then run extract_time_trace.m to draw ROIs manually and extract time traces. This work-flow will soon be integrated in a guided procedure in GUI.
- Bo Hu, Friedrich-Miescher Institute for Biomedical Research, Basel
- Jan Eckhardt, Friedrich-Miescher Institute for Biomedical Research, Basel
- Peter Rupprecht, Brain Research Institute, Zurich*
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 2 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/.