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For example, for the first bin
bin_count = number of interspike intervals (isi)
such that isi >= IntMin and isi < IntMin + Bin
If Normalization is Counts/Bin, no further calculations are performed.
If Normalization is Probability, bin counts are divided by the number of interspike intervals in the
spike train.
If Normalization is Spikes/Sec, bin counts are divided by NumInt*Bin, where NumInt is the number
of interspike intervals in the spike train.
If Use Log Bins and X Axis option is selected:
The i-th bin (i=1,2,...) is [IntMin * 10 ^ ((i -1)/D), IntMin * 10 ^ (i/D)), where D is the Number of Bins
Per Decade. For each bin, the number of interspike intervals within this bin is calculated. For
discussion on using logarithm of interspike intervals, see:
Alan D. Dorval, Probability distributions of the logarithm of inter-spike intervals yield accurate entropy
estimates from small datasets. Journal of Neuroscience Methods 173 (2008) 129–139
Page 55
- NeuroExplorer Manual 1
- Table of Contents 3
- 1. Getting Started 9
- NeuroExplorer Updates 10
- Files Panel 14
- Multi Channel Systems Files 20
- Neuralynx Files 20
- File Import Options 20
- 1.10. 1D Data Viewer 26
- 1.11. Analyzing Data 27
- 1.16. Analysis Templates 33
- 1.17. Numerical Results 34
- 1.18. Post-processing 35
- 1.20. Working with Matlab 37
- 1.21. Working with Excel 38
- 1.22. Saving Graphics 39
- 2. Analysis Reference 40
- 2.1. Data Types 41
- 2.1.2. Events 42
- 2.1.3. Intervals 42
- 2.1.4. Markers 44
- 2.1.5. Population Vectors 45
- 2.1.6. Waveforms 46
- Limitations 47
- 2.2. Data Selection Options 48
- 2.3. Post-Processing Options 49
- 2.4. Matlab Options 50
- 2.5. Excel Options 50
- 2.7. Cumulative Sum Graphs 52
- 2.8. Rate Histograms 53
- 2.10. Autocorrelograms 58
- 2.11. Perievent Histograms 61
- Peak and Trough Statistics 64
- 2.12. Crosscorrelograms 66
- Shift-Predictor Algorithm 71
- More on Time Intervals 72
- 2.14. Rasters 73
- 2.15. Perievent Rasters 74
- 2.16. Joint PSTH 77
- 2.18. Instant Frequency 80
- (t[i], t[i] - t[i-1]) 81
- 2.21. Synchrony vs. Time 83
- 2.22. Trial Bin Counts 85
- 2.24. Burst Analysis 90
- 2.26. PSTH Versus Time 95
- 2.28. Regularity Analysis 99
- Algorithm 100
- Reference 100
- 2.29. Place Cell Analysis 101
- Summary of Numerical Results 102
- 2.30. Reverse Correlation 105
- 2.31. Epoch Counts 108
- 2.32. Coherence Analysis 110
- 2.33. Spectrogram Analysis 113
- 2.34. Perievent Spectrograms 115
- 2.35. Joint ISI Distribution 117
- Parameters 119
- 3. Working with Graphics 121
- 3.4. Text Labels 124
- 3.5. Lines 125
- 3.6. Rectangles 126
- 4. Working with 3D Graphics 127
- 4.2. 3D Graphics Parameters 129
- 5. Programming with NexScript 133
- 5.1. Script Variables 135
- 5.2. File Variables 136
- 5.3. Expressions 138
- 5.4. Flow Control 139
- Conditional operators 140
- 5.5. Functions 141
- See Also 142
- 5.5.1.2. GetFileName Function 144
- 5.5.1.3. OpenFile Function 145
- 5.5.1.4. CloseFile Function 146
- 5.5.1.5. ReadLine Function 147
- 5.5.1.6. WriteLine Function 148
- 5.5.1.8. NewDocument Function 150
- CloseDocument(doc) 151
- 5.5.1.15. MergeFiles Function 157
- 5.5.1.16. ReadBinary Function 158
- 5.5.1.17. FileSeek Function 159
- 5.5.1.18. SelectFile Function 160
- 5.5.2.1. GetDocPath Function 162
- 5.5.2.2. GetDocTitle Function 163
- SetDocEndTime(doc, 1200.3) 166
- 5.5.3.1. GetVarCount Function 169
- 5.5.3.2. GetVarName Function 170
- 5.5.3.4. GetVar Function 172
- 5.5.3.5. DeleteVar Function 173
- 5.5.3.6. Delete Function 174
- 5.5.3.8. NewEvent Function 176
- 5.5.3.9. NewIntEvent Function 177
- 5.5.3.12. NewContVar Function 180
- 5.5.4.1. IsSelected Function 183
- 5.5.4.2. Select Function 184
- 5.5.4.3. Deselect Function 185
- 5.5.4.4. SelectVar Function 186
- 5.5.4.5. DeselectVar Function 187
- 5.5.4.6. Select Function 188
- 5.5.4.7. Deselect Function 189
- 5.5.4.8. SelectAll Function 190
- 5.5.4.9. DeselectAll Function 191
- SelectAllNeurons(doc) 192
- EnableRecalcOnSelChange () 194
- 5.5.5.1. GetName Function 197
- AddTimestamp(eventVar, 1.5) 199
- 5.5.5.6. AddInterval Function 202
- 5.5.6. Analysis Functions 203
- PrintGraphics(doc) 206
- 5.5.7.1. GetNumRes Function 217
- 5.5.8.1. Rename Function 231
- 5.5.8.2. Join Function 232
- 5.5.8.3. Sync Function 233
- 5.5.8.4. NotSync Function 234
- 5.5.8.5. FirstAfter Function 235
- 5.5.8.6. FirstNAfter Function 236
- 5.5.8.7. LastBefore Function 237
- "Trials")) 238
- 5.5.8.11. SelectEven Function 241
- 5.5.8.12. SelectOdd Function 242
- 5.5.8.13. ISIFilter Function 243
- 5.5.8.22. IntOr Function 252
- 5.5.8.23. IntAnd Function 253
- 5.5.8.24. IntSize Function 254
- 5.5.8.25. IntFind Function 255
- 5.5.8.27. Shift Function 257
- 5.5.8.28. NthAfter Function 258
- 5.5.9. Matlab Functions 263
- SendSelectedVarsToMatlab(doc) 264
- 5.5.10. Excel Functions 270
- CloseExcelFile(excelFilePath) 272
- 5.5.12.1. RunScript Function 277
- 5.5.12.2. Sleep Function 278
- 5.5.13. Math Functions 279
- 5.5.13.1. seed Function 281
- 5.5.13.2. expo Function 282
- 5.5.13.3. floor Function 283
- 5.5.13.4. ceil Function 284
- 5.5.13.5. round Function 285
- 5.5.13.6. abs Function 286
- 5.5.13.7. sqrt Function 287
- 5.5.13.8. pow Function 288
- 5.5.13.9. exp Function 289
- 5.5.13.10. min Function 290
- 5.5.13.11. max Function 291
- 5.5.13.12. log Function 292
- 5.5.13.13. sin Function 293
- 5.5.13.14. cos Function 294
- 5.5.13.15. tan Function 295
- 5.5.13.16. acos Function 296
- 5.5.13.17. asin Function 297
- 5.5.13.18. atan Function 298
- 5.5.13.19. RoundToTS Function 299
- % x now equals to 1 303
- 5.5.13.25. GetBit Function 305
- 5.5.14. String Functions 306
- 5.5.14.1. Left Function 307
- 5.5.14.2. Mid Function 308
- 5.5.14.3. Right Function 309
- 5.5.14.4. Find Function 310
- 5.5.14.5. StrLength Function 311
- 5.5.14.6. NumToStr Function 312
- 5.5.14.7. StrToNum Function 313
- % numFields is now equal to 4 314
- 5.5.14.10. CharToNum Function 316
- 5.5.14.11. NumToChar Function 317
- 5.5.15. Debug Functions 318
- 5.5.15.1. Trace Function 319
- 5.5.15.2. MsgBox Function 320
- 6. COM/ActiveX Interfaces 321
- 6.1. Application 322
- 6.1.2. DocumentCount Property 324
- 6.1.3. Version Property 325
- 6.1.4. Visible Property 326
- 6.1.5. OpenDocument Method 327
- 6.1.6. Document Medhod 328
- 6.1.7. Sleep Method 329
- 6.1.8. RunNexScript Method 330
- 6.2. Document 332
- 6.2.1. Path Property 334
- 6.2.2. FileName Property 335
- 6.2.3. Comment Property 336
- 6.2.5. StartTime Property 338
- 6.2.6. EndTime Property 339
- 6.2.7. VariableCount Property 340
- 6.2.8. NeuronCount Property 341
- 6.2.9. EventCount Property 342
- 6.2.11. MarkerCount Property 344
- 6.2.12. WaveCount Property 345
- 6.2.14. Variable Method 347
- 6.2.15. Neuron Method 348
- 6.2.16. Event Method 349
- 6.2.17. Interval Method 350
- 6.2.18. Marker Method 351
- 6.2.19. Wave Method 352
- 6.2.20. Continuous Method 353
- 6.2.21. DeselectAll Method 354
- 6.2.24. ApplyTemplate Method 357
- 6.2.26. Close Method 359
- 6.3. Variable 360
- 6.3.1. Name Property 361
- 6.3.3. Timestamps Method 363
- 6.3.4. IntervalStarts Method 364
- 6.3.5. IntervalEnds Method 365
- 6.3.7. FragmentCounts Method 367
- 6.3.9. MarkerValues Method 369
- 6.3.10. WaveformValues Method 370
- 6.3.11. Select Method 371
- 6.3.12. Deselect Method 372
- Page 371 373
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