ephys_pipeline:pipeline_overview
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Waveclus pipeline
- Fill in Electrode depth file
- Create waveclus pre-clustering files (implemented in phys_gui)
- Run waveclus and sort for all channels, don’t forget to save (wave_clus3new3, MATLAB 2014+)
- Preferentially separate spike shapes in difficult cases
- Create plxfiles from WC (implemented in phys_gui)
- Check and clean PLX file AND TAKE NOTES (single/SNR/stability rating)
- Create combined (phys+behavior) files (implemented in phys_gui)
- Plot single unit tuning assuming cells are unique in every block (implemented in phys_gui)
- Optional, this is meant to help assessing if two “units” in the same block are actually the same
- Assess which units are the same within and across blocks (based on channel, electrode depths, spike shapes and potentially tuning, carefully check notes for this)
- Re-sort PLX file (combining same cells sort codes of same block same channel)
- Optional for cases where it was not clear if the “units” are the same
- Fill in Same cells file
- Automatically update the automatic_sorting sheet from the Excel sorting table using phys_gui
- Copy the automatic_soting entries to the final_sorting sheet of the Excel sorting table and complete with manual entries.
ephys_pipeline/pipeline_overview.1508885160.txt.gz · Last modified: 2022/12/29 07:15 (external edit)