Perform a benchmark of NeuroScope2 testing its performance with a variable number of channels and windows widths
Perform test suite of NeuroScope2
Performs tests of most actions available in the side menu. The test suite can also be executed from the terminal by providing the parameter as an input: NeuroScope2('performTestSuite',true).
Quit
Quit NeuroScope2. This will save automatically save the session metadata. Closing the main window has the same effect.
File
Elements
Description
Load session from folder
Opens a file dialog where you can select a folder to load
Load session from file
Opens a file dialog where you can select a file to load
Recent sessions…
Shows a list of recently active sessions.
Export figure data..
Exports figure data to .png (image graphics), a .pdf file (vector graphics), or via the export setup dialog
Session
Elements
Description
View metadata
Shows the session GUI (session metadata)
Save metadata
Save the session metadata
Open basepath
Opens the basepath of the current active session in finder/explorer
Shows the database dialog with list of sessions with calculated cell metrics.
Edit credentials
Open the database credentials file db_credentials.m, where you can define your Buzsaki lab databank credentials
Edit repository paths
Open the database credentials file db_local_repositories.m, where you can define the local paths to data repositories used by CellExplorer and the database tools
View current session on website
Shows the current session in the Buzsaki lab databank in your browser
View current animal subject on website
Shows the current animal subject in the Buzsaki lab databank in your browser
View
Elements
Description
Summary figure
Generates a summary figure containing the full timeline of external data currently active in NeuroScope2, e.g. spikes, events, states, behavior and trials, time series
RMS noise across channels
Generates a figure with RMS across electrodes
Power spectral density across channels
Generates a power spectral density plot for all active channels
Power spectral density across channels (log bins; slower)
Generates a power spectral density plot, with log bins, for all active channels. Slower but more informative
Settings
Elements
Description
Show full menu
boolean Hides the NeuroScope2 menu and shows the regular Matlab figure menu bar. Press M to reverse.
Remove DC from signal
boolean Substracts the mean of each trace (DC-level)
Show channel numbers
boolean Shows channel numbser left of the traces
Show scale bar
boolean Shows a scale bar in the upper left corner of the traces
Narrow ephys padding
boolean Decreases the vertical padding above and below the ephys traces
Dynamic ephys range plot
boolean Alterns how the “range” plot style acts. In dynamic mode, the range style will only be applied for windows sizes larger 1.2s, otherwise all samples will be plotted. Matlab performs well up to a upper limit of simultaneously plotted samples (~1 second at 20KHz, 128 channels), after which it becomes significantly faster to plot a subset of the points.
Color ephys traces by channel order
Apply the colormap by channel order instead of by electrode groups. Select the number of color groups (1-50)
Change colormap of ephys traces
Change the colormap applied to the ephys traces (default to the electrode groups).
Change colormap of spikes
Change the colormap applied to the spike rasters.
Change background color & primary color (ticks, text and rasters)
Changes the color of the trace background (black) and the primary color (white; ticks, text, and rasters)
Show detected events below traces
boolean Shows detected events below traces.
Show detected spikes below traces
boolean Shows detected spike raster below traces.
Debug
Toggle debug mode
Analysis
Please see the dedicated page about performing custom analysis directly from NeuroScope2.