Link

Preferences

Preferences are located in CellExplorer_Preferences.m and is stored as fields in UI.settings.*.

Display settings

customCellPlotIn1-6
incomplete list: 'Single waveform','All waveforms','All waveforms (image)','Single raw waveform','All raw waveforms','Single ACG','All ACGs','All ACGs (image)','CCGs (image)','Sharp wave-ripple'
ACG_type
['Normal' (100ms), 'Wide' (1s), 'Narrow' (30ms)]
monoSynDispIn
['None', 'Selected', 'All']
plotCountIn
['GUI 1+3','GUI 2+3','GUI 3+3','GUI 3+4','GUI 3+5','GUI 3+6']
metricsTableType
['Metrics','Cells','None']
plotWaveformMetrics
[0,1]
dispLegend
[0,1]

Initial data displayed in the customPlot

plotXdata
'firingRate'
plotYdata
'peakVoltage'
plotZdata
'troughToPeak'

Autosave settings

autoSaveFrequency
6
autoSaveVarName
'cell_metrics'

Cell type classification definitions

cellTypes
{'Unknown', 'Pyramidal Cell 1', 'Pyramidal Cell 2', 'Pyramidal Cell 3', 'Narrow Interneuron', 'Wide Interneuron'}
deepSuperficial
{'Unknown', 'Cortical', 'Deep', 'Superficial'}

Cell type classification colors

cellTypeColors
[ [.5,.5,.5];[.2,.2,.8];[.2,.8,.2];[0.2,0.8,0.8];[.8,.2,.2];[0.8,0.2,0.8] ]

Fields used to define the tSNE space

tSNE_calcWideAcg
boolean
tSNE_calcNarrowAcg
boolean
tSNE_calcFiltWaveform
boolean
tSNE_calcRawWaveform
boolean

List of fields to use in the general tSNE representation

tSNE_metrics
{'FiringRate', 'ThetaModulationIndex', 'BurstIndex_Mizuseki2012', 'TroughToPeak', 'AB_ratio', 'BurstIndex_Royer2012', 'ACG_tau_rise', 'ACG_tau_burst', 'ACG_h', 'ACG_tau_decay', 'CV2', 'BurstIndex_Doublets', 'ThetaPhaseTrough', 'ThetaEntrainment', 'derivative_TroughtoPeak'}
tSNE_dDistanceMetric
default 'seuclidean'

Highlighting excitatory and inhibitory cells

displayInhibitory
boolean
displayExcitatory
boolean

Firing rate map setting

showHeatmap
boolean
showLegend
boolean
showHeatmapColorbar
boolean