These are tutorials to get started using the SanPy desktop GUI.

Please watch the videos as you follow along with a recipes.

Load a file, detect spikes, and run some plugins

Recipe for remaking the SanPy manuscript figure 3 from the GUI. Here we will load a raw data file, detect some spikes, and run some plugins.

1. Run SanPy
2. Select menu File -> Open ...
3. Open data file 2021_07_20_0010.abf from the data/ folder
4. Select a sweep with a number of spikes (for example, sweep 14)
5. Select Fast Neuron in the Detection - Presets popup
6. If it is not already shown, display the derivative of the recording with the View - Derivative menu
7. In the derivative plot, click and drag the horizontal cursor (C) to set the desired dvdt threshold for spike detection
8. Right click the derivative plot and select the Set dvdt Threshold menu
9. Click the Detect dV/dt button in the Detection panel.

Finally, run the plugins to genarate Figure 3 a/b

1. Select the Plugins - Plot Recording menu, this will generate panel (a)
2. Select the Plugins - Plot FI menu, this will generate panel (b)

Screen shot of the main GUI.

Right click the dvdt plot and select Set dvdt Threshold.

Figure 3a, the Plot Recording plugin.

Figure 3b, the Plot FI plugin.

Loading a folder, detect spikes in multiple files, and run the Plot Tool (pool) plugin

Recipe for remaking the SanPy manuscript Figure 4 from the GUI.

Please note, this will not be the same exact data but the plots will be similar.

1. Run SanPy
2. Use Load Folder ... to load the provided sample data in the data/ folder.
3. Load and analyze two raw data files. Try with 19114001.abf and 20191009_0005.abf
4. Use the Set Meta Data plugin to set the Condition1 of one file to Control, and the other file to Drug
5. Run the Plot Tool (pool) plugin
6. Set the interface as follows
   • Plot Type: Violin Plot
   • Hue: Condition1
   • X-Stat: Condition1
   • Y-Stat: Spike Frequency (Hz)

The plot in the plugin should look something like this

The step above can be repeated for any Y-Stat such as Take Off Potential (mV) or other.

Likewise, a scatter plot is easily created by selecting Plot Type Scatter Plot and choosing the desired X-Stat and Y-Stat.

Load a file, detect spikes, set spike conditions and plot with Plot Tool plugin

Recipe for remaking the SanPy manuscript Figure 6 from the GUI.

Please note, this will not be the same exact data but the plots will be similar.

We are working on a recipe, check back soon!