Release notes

Spyking CIRCUS 0.4.2

This is the 0.4 release of the SpyKING CIRCUS, a new approach to the problem of spike sorting. The code is based on a smart clustering with sub sampling, and a greedy template matching approach, such that it can resolve the problem of overlapping spikes. The publication about the software is available at http://biorxiv.org/content/early/2016/08/04/067843

../_images/launcher.png

The software can be used with command line, or a dedicated GUI

Warning

Because this is a beta version, the code may evolve. Even if results are or should be correct, we can expect some more optimizations in a near future, based on feedbacks obtained on multiple datasets. If you spot some problems with the results, please be in touch with pierre.yger@inserm.fr

Contributions

Code and documentation contributions (ordered by the number of commits):

  • Pierre Yger
  • Marcel Stimberg
  • Baptiste Lebfevre
  • Christophe Gardella
  • Olivier Marre
  • Cyrille Rossant

Release 0.4.2

  • fix a bug in the test suite
  • fix a bug in python GUI for non integer thresholds
  • fix a bug with output strings in python3
  • fix a bug to kill processes in windows from the launcher
  • fix graphical issues in the launcher and python3
  • colors are now present also in python3
  • finer control of the amplitudes with the dispersion parameter
  • finer control of the cut off frequencies during the filtering
  • the smart search mode is now back, with a simple True/False flag. Use it for long or noisy recordings
  • optimizations in the smart search mode, now implementing a rejection method based on amplitudes
  • show the mean amplitude over time in the MATLAB GUI
  • MATLAB is automatically closed when closing the MATLAB GUI
  • mean rate is now displayed in the MATLAB GUI, for new datasets only
  • spike times are now saved as uint32, for new datasets only
  • various fixes in the docs
  • improvements when peak detection is set on “both”
  • message about cc_merge for low density probes
  • message about smart search for long recordings
  • various cosmetic changes
  • add a conda app for anaconda navigator

Release 0.4.1

  • fix a bug for converting millions of PCs to phy, getting rid of MPI limitation to int32
  • fix bugs with install on Windows 10, forcing int64 while default is int32 even on 64bits platforms
  • improved errors messages if wrong MCS headers are used
  • Various cosmetic changes

Release 0.4

First realease of the software