Spike identification on TraceView

[JasGren]

I am trying to asses which colored spikes in the TraceView belong to which cluster. However, their color code is not shown for the clusters and selecting individual clusters does not provide a hint which spikes they represent.

[rossant]

There are 2 display modes : one where all spikes are shown in different faint colors, and selected clusters in blue/red/etc., and one where only selected spikes are shown. You can switch in the menu bar
Also, the trace view is not updating by default when selecting clusters (for performance reasons), so you have to refresh it by going left or right for example

[JasGren]

Thank you for your quick reply! I have another thing which somehow started appearing. Normally, in the WaveformView, one can see the channels on which the spikes occur and that worked fine. However, since a few days I only see the very last channel in the WaveformView (channel nr 15 of a 16ch probe). I did not change the prm or prb file and all 16 channels are shown as before in the TraceView.

I tried to find the option on de- and then reinstalling the kwik-gui, but haven't been able to do so yet.

[JasGren]

I haven't heard back from you yet, so I hope you will reply to this repost. I have another thing which somehow started appearing. Normally, in the WaveformView, one can see the channels on which the spikes occur and that worked fine. However, since a few days I only see the very last channel in the WaveformView (channel nr 15 of a 16ch probe). I did not change the prm or prb file and all 16 channels are shown as before in the TraceView. I tried to find the option on de- and then reinstalling the kwik-gui, but haven't been able to do so yet. Am 17.10.2018 um 21:05 schrieb Cyrille Rossant:

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There are 2 display modes : one where /all/ spikes are shown in different faint colors, and selected clusters in blue/red/etc., and one where only selected spikes are shown. You can switch in the menu bar Also, the trace view is not updating by default when selecting clusters (for performance reasons), so you have to refresh it by going left or right for example — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub <#56 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/Aom0g1mcp0pOu_0OwQ280B-g8b3D1d59ks5ul39igaJpZM4XkLvY>.

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--------------------------------------------------------------------- Dr. J. Grendel University Medical Center Hamburg-Eppendorf ZMNH Institute for Molecular and Cellular Cognition (D.Kuhl) Falkenried 94 20251 Hamburg Germany Tel.:040 - 7410 - 55062 Fax.:040 - 7410 - 55101

-- Pflichtangaben gemäß Gesetz über elektronische Handelsregister und Genossenschaftsregister sowie das Unternehmensregister (EHUG): Universitätsklinikum Hamburg-Eppendorf Körperschaft des öffentlichen Rechts Gerichtsstand: Hamburg Vorstandsmitglieder: Prof. Dr. Burkhard Göke (Vorsitzender) Prof. Dr. Dr. Uwe Koch-Gromus Joachim Prölß Marya Verdel

[rossant]

Strange, can you try to rename the .phy subfolders into .phy~? There are two such folders, one in the data directory, one in your HOME directory. This procedure will clear the cache.

[JasGren]

Windows does not allow that folder name change. Deleting them does solve the problem. Thanks a lot! Am 20.11.2018 um 13:00 schrieb Cyrille Rossant:

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Strange, can you try to rename the |.phy| subfolders into |.phy~|? There are two such folders, one in the data directory, one in your HOME directory. This procedure will clear the cache. — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub <#56 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/Aom0g3pWvpGJoUeMShyHfyWIUTQ1qj7oks5uw-7vgaJpZM4XkLvY>.

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--------------------------------------------------------------------- Dr. J. Grendel University Medical Center Hamburg-Eppendorf ZMNH Institute for Molecular and Cellular Cognition (D.Kuhl) Falkenried 94 20251 Hamburg Germany Tel.:040 - 7410 - 55062 Fax.:040 - 7410 - 55101

-- Pflichtangaben gemäß Gesetz über elektronische Handelsregister und Genossenschaftsregister sowie das Unternehmensregister (EHUG): Universitätsklinikum Hamburg-Eppendorf Körperschaft des öffentlichen Rechts Gerichtsstand: Hamburg Vorstandsmitglieder: Prof. Dr. Burkhard Göke (Vorsitzender) Prof. Dr. Dr. Uwe Koch-Gromus Joachim Prölß Marya Verdel

[JasGren]

Ok, it seems that now I have created a different problem for myself. The timeline of steps that I did is:

• cluster original spikes
• obtain 20 clusters
• reclustered some of them
• obtained ~10 new clusters (21-30)
• view in KwikGUI
• to try and solve the aforementioned problem of probe layout, deleting .phy from the home directory
• view in KwikGUI, now only showing the original 20 clusters
• reclustered some of them
• obtained ~10 new clusters (31-40)
• close the KwikGUI
• reopen KwikGUI, shows only original 20 clusters
• MATLAB hdf5 reading does not find reclustered data