Exported Phy data sets all clusters to "unsorted" group, ignoring sorter's group assignments

[cheydrick]

Hi this is Chris with Plexon. I used SpikeInterface to sort using Kilosort 4, and then exported to Phy.

I found that when exporting to Phy that each cluster is set to the “unsorted” group in cluster_group.tsv. The Kilosort 4 output also contains a cluster_group.tsv, but the clusters are set to either “mua” or “good”.

The sorting object returned by run_sorter() contains this group assignment in the 'KSLabel' property.

Is there a way for the Phy export process to carry over the cluster groups that Kilosort 4 assigned?

Thanks,
Chris
chris@plexon.com

[zm711]

The export_to_phy doesn't automatically do that because not all sorters return KSLabel. Since that is a KS specific thing. I'm wondering if we can instead add a parameter to export_to_phy called add_annotations (or something like that) and then we can write any annotations that occur on a per-cluster basis into the tsv with a column heading of the key in the annotations dict. I don't use annotations for these objects much.... does that sound possible @alejoe91. Then if the user wants the KSLabel or any other label (for example they do qc metrics and make their own "score" of 4 of the metrics and want to create a column based on that for use in phy).