hbpvis / viola Goto Github PK

• set default values so that it looks nice with test data set, e.g., always switch on first population at start
• rethink limits for isolation values
• time line all wrong with a different layer extent (!)
• bug with opacity (in test data set only in EX population): parts completely vanish from one opacity level to the next (!)

• f(x)=A*x+B, default values are A=0 and B=0, but should be A=1 and B=0

• color bar does not change when log is switched on
• color bar with >2 ticks
• min max of zoom
• correlation plot must also allow for negative correlations that naturally occur for oscillatory activity

• rate of IN neurons seems to be much higher than of EX, although they are approximately the same. what is wrong? - Average over fewer neurons leads to more extreme values.
• label of colorbar: "Bin-wise spike count (1/s)"
• add LFP as an additional panel
• replace black background with white for raw data

• replace current data by a simulation with an external stimulus
• in preprocessing file and lfp: make out_raw and out_proc default folders if not specified otherwise (like in simulation script)
• add in readme/doc that default folders are used if not specified otherwise
• fake_LFP_signal.py not working for different extent_length (ok for 3, did not work for 5)

• only user manual?
• needs review, more details

For Developer Manual, the following points are missing:

• How to develop your own visualization and add it to VIOLA
• How to develop or integrate your own data loading routine

• responsive web design, nice placing of panels
• nicer ticks, e.g., rounded to 5,10...
• default values nice with test data
• units: be clear where timestamps and where timesteps in s or ms are needed
• more tests to handle wrong input
• a bit of documentation visible in the tool itself (which panel is which, what is shown...), "README" on loading page
• higher resolution, needed especially for graph labels
• additional info/doc when hovering over a certain icon
• formatting for better reading
• check where values should be handled as floats

• nicer default view
• this panel also visible at start (see above)
• "grid for spatial bins using sets of opaque/thin lines"

• legend outside of panel or box around bars
• delay at max should give an overview of the whole simulation duration
• xticks of delay in better steps
• needs review for raw data
• nicer yticks (currently hardcoded: 4 equally spaced positions chosen with respect to the maximum value)
• separate control for data scaling
• rounding error (for some selected time window, the display turns black)

• works with chrome, but not with firefox
• graph panel: rate calculation needs to be fixed
• density scaling needs review

• restructure for more clarity
• move "choose file" button to top
• LFP only for binned data, remove for raw data, update changes in test data files for generation of configuration files
• add textarea for file name of LFP, update changes also in test data files for automatic generation of configuration files
• design? "welcome to VIOLA" ;-)
• license -> Use LPGLv2
• documentation how to use it, increase usability of the UI
• define data type as a string to be used as labels in the views

• since there are not so many entries in each drop-down menu - what about a panel with all the options displayed all the time?

• file names of analog signal should be entered in the 'setup parameters' panel
• remove LFP completely from version with raw spika data
• what about a colorbar for LFP?
• loading the LFP file does not terminate if a different layer extent than 4x4 mm² is chosen
• add control parameter for "depth" of LFP layer
• rethink saturation of LFP value