NeuroXidence
Example Datasets
NeuroXidence

Examples for using NeuroXidence

Three example data sets with spiking activity from 3, 8, and 70 neurons are included in a zip package you can download (Toy_data_1: 8 Neurons, Toy_data_2: 3 Neurons, Toy_data_3: 70 Neurons ).  For each of the toy data sets a matlab script, Example_call_NX_Restricted_Dataset_1.m, Example_call_NX_Restricted_Dataset_2.m, and Example_call_NX_Restricted_Dataset_3.m is included.

 

Toy data set 3:

Toy data set 2 contains 40 trials of 1s spiking activity from 70 Neurons. Please use Example_call_NX_Restricted_Dataset_3.m to run the demo. The spike rate is 5 ap/s. During the periods 0-0.4s and 0.8-2s the spike activity of all 70 neurons is mutually independent. Periods between 0.4s and 0.8s contain correlated spiking activity based on a single interaction process (see publication). The computation time for analyzing each period amounts on ~10 min on average (Notebook with 1.6 GHz, 2 GB Ram). It holds for the following periods:

  • Period 2 (0.4-0.8s): 7 sets of each 4 neurons are correlated and share 1 JSE/s
  • (set 1: Neuron 7,8,9,10 / set 2: Neuron 17,18,19,20 / set 3: Neuron 27,28,29,30 / set 4: Neuron 37,38,39,40 / 5: Neuron 47,48,49,50 / set 6: Neuron 57,58,59,50 / set 7: Neuron 67,68,69,70)

  • Period 3 (0.4-0.8s): 2 sets of each 8 neurons are correlated and share 1 JSE/s
  • (set 1: Neuron 7,8,9,10,11,12,13,14 / set 2: Neuron 42,43,44,45,46,47,48,49)

     

Period 2: all (6964) Joint-Spike Patterns

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Period 2: only significant Joint-Spike Events

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Raster_Pattern_Plot_C2_C3_C4_C5_C6_C7_C8All_joint_spike_events_Window_ID2

Raster_Pattern_Plot_C2_C3_C4_C5_C6_C7_C8Significant_joint_spike_events_Window_ID2

 

 

 

 

Toy data set 2:

Toy  data set 2 contains 50 trials of 9s spiking activity from 3 Neurons. The spike rate in the first 3s and the last 1s is 30 ap/s. During the periods 0-2s and 8-9s the spike activity of all three neurons is mutually independent. Periods between 3s and 8s are correlated based on a single Interaction process (see publication). It holds for the following periods:

  • 2-3s: Neuron 1 and 2 are correlated and share 5 JSE/s.
  • 3-4s: Neuron 1 and 2 are correlated and share 2 JSE/s.
  • 4-5s: Neuron 1 and 2 are correlated and share 5 JSE/s.
  • 5-6s: Neuron 1,2 and 3 are correlated and share 2 JSE/s.
  • 6-7s: Neuron 1,2 and 3 are correlated and share 5 JSE/s.

 

To explore the data set you can call the function Example_call_NX_Restricted_Dataset_2.m that is contained in the zip file that can be downloaded. Do not forget to include all provided function files *.p as well as the license file into the matlab path. If you use NeuroXidence without a license file it will switch into an restricted mode if you are analysing any other data set than one of the three toy demo data sets contained in the demo package. However, if you apply NeuroXidence without an lisence file on one of the three data sets that are included in the the demo package NeuroXidence turns temporally in an unrestricted version.

After the computation finished you should find 4 folders that contain .fig, .eps , .pdf, and .jpg files. Besides the PSTH you will find Raster plots for all Joint-spike events that show all spikes and all Joint-spike patterns in red irrespective if individual patterns are significant or not (e.g. Raster_Pattern_Plot_C2_C3Raster_plot_with_Joint_spike_Events_window1.jpg).

In addition you will find raster plots that contain only those patterns that are significantly more often than expected by chance (e.g. Raster_Pattern_Plot_C2_C3Raster_plot_with_significant_Joint_spike_Events_window1.jpg).

 

Period 2: all Joint-Spike Patterns

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Period 2: only significant Joint-Spike Events

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Raster_Pattern_Plot_C2_C3All_joint_spike_events_Window_ID202

Raster_Pattern_Plot_C2_C3Significant_joint_spike_events_Window_ID202

Period 6: all Joint-Spike Patterns

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Period 6: only significant Joint-Spike Patterns

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Raster_Pattern_Plot_C2_C3All_joint_spike_events_Window_ID603

Raster_Pattern_Plot_C2_C3Significant_joint_spike_events_Window_ID602

 

 

Example for using NeuroXidence (Toy_Dataset_1):

Toy data set 1 contains 50 trials from 8 Neurons. Only the second half from 1.5-3s contains correlated activity.

To explore the data set you can call the function Example_call_NX_Restricted_Dataset_1.m that is contained in the zip or rar file that can be downloaded. Do not forget to include all provided function files *.p into the matlab path.

 

All Joint-Spike Pattern

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Only Significant Joint-Spike Pattern

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Raster_Pattern_Plot_C2_C3_C4_C5_C6All_joint_spike_events_Window_ID203

Raster_Pattern_Plot_C2_C3_C4_C5_C6Significant_joint_spike_events_Window_ID2

 

 

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