Action List [z]
Temporal auto correlation [t]
Time window [[options.max_delta_t]] ms
The number of bins is fixed at 100.
Drift [d]
Render the cluster plots and spatial spike plot using a palette that shows the average time for spikes in each pixel (smoothing is applied in the case of the cluster plots but not for the spatial plot).
early mean time ------ late mean time
So red means that the spikes have "dissapeared" from that area of the plot as the trial progressed, while green means "new" spikes have "appeared" (scare quotes needed because it could be more complciated than this).
Shortcuts [k]
For most of the following shortcuts, if you use alt-x instead of just x you will toggle the settings
pane for the given feature, e.g. alt-r toggles the settings pane for spatial ratemap, whereas r
by itself toggles the actual ratemap plots. (In some cases alt is not needed because toggling the pane is
the only action linked to the shortcut.)
Shorcuts for the plots shown for each group; use shift to select multiple:
- w waveforms
- r spatial ratemap
- c directional ratemap ("c" is for circle)
- v speed ratemap ("v" is for velocity)
- t temporal autocorrelogram
Shorcuts applied to the "active" group, which is the one under the cursor:
- e set the cluster painting destination group to the active group.
- f set the cluster painting srouce group to the active group. Note you can hold down shift to toggle multiple source groups on/off.
- s launch the swap dialog for the "active" group.
- ctrl-c copy the active group's plots and some info text to the system clipboard.
Other shortcuts:
- 0-9 jump to tetrode number with 1s digit 0-9
- o (the letter "o") toggle 10s digit of tetrode number
- d toggle drift rendering on/off
- space hold down space and click with mouse for plot grabbing or removal
- +/- grow/shrink size of cluster plots (note that "+" is actually the "=" key)
- enter increment cluster painting destination group
- esc open/close the toolbar
- p toggle waveform palette
- h show header info
- x show pos settings
- k show this info ("k" is for keyboard)
- ? open GitHub info in a new tab
- m,n increase/decrease the size of the cluster plots
Speed ratemap [v]
Bin size 4 cm/s
Upper limit 45 cm/s
Histogram shows slowest speed at the top, and upper limit speed at the bottom.
WARNING: speed plots are still in alpha testing (unlike everything else which is just about in beta!).
Waves [w]
There are two palette modes.
Render in [[options.waves_render_mode]] mode.
In "flag" mode, each group from 0 to 30 gets its own color, and is rendered solidly in that color.
In "density" mode, the color of each pixel reflects the proportion of the waves which cross it.
Spatial ratemap [r]
Bin size [[options.cm_per_spa_bin]] cm
Smoothing kernel boxcar (2x[[options.smoothing_spa_bins]]+1) by (2x[[options.smoothing_spa_bins]]+1) bins
Ratemap frequency values are {{_make_max_rate_caption(options.max_rate_spa)}}
The true peak rate is shown as "spa max" when you move your cursor over a group.
Ratemap height:{{_make_spa_rm_height_caption(options.spa_rm_height)}}
Directional ratemap [c]
Bin size [[options.deg_per_dir_bin]] degrees
Smoothing kernel boxcar ([[options.smoothing_dir_bins]]x2+1) bins
Note that in 2-spot LED mode, the relative position of the two LEDs is used, in 1-spot LED mode,
the direction of movement is used (this is sometimes refered to as "displacement direction").
The true peak rate is shown as "dir max" when you move your cursor over a group.
position post processing [x]
If you tracked with two LEDs you can read in both data streams. "Standard" post-processing will be applied to decide when
the two spots have swapped.
Use [[options.use_n_leds]] LEDs:
The following filtering and smoothing is applied to the one/two data streams separately.
If two LEDs are used, a single estimate of position is produced at the end, using a weighted sum.
Speed {{_make_max_speed_caption(options.speed_filter_mps)}}
Where the speed appears to rise above this threshold the data is considered invalid.
Where data is missing (either because no pixels were tracked for the given sample or the above filter invalidated the data),
new values are created by linearly interpolated across the gaps.
Smoothing {{_make_pos_smoothing_caption(options.pos_smoothing_s)}}
Following filtering for speed and interpolation, the X and Y data is smoothed using a boxcar (i.e. moving average) of the above width.
[[item.title]]
[[item.title]]
[[item.title]]
undo [z]
right-click for full history [alt-z]
redo [y]
right-click for full history [alt-z]
position post processing settings [x]
wav
waves [w]
right-click for settings [alt-w]
rm
spatial ratemap [r]
right-click for settings [alt-r]
dir
directional ratemap [c]
right-click for settings [alt-c]
spd
speed ratemap [v]
right-click for settings [alt-v]
tc
temporal autocorrelation [t]
right-click for settings [alt-t]
[[_format_timespan(start_end_times)]]
grabber mode
drag & drop files here
the following types of data files are recognised:
set | pos | tet | cut | clu
you can drag further files onto the window at any point
other file types will be ignored
