Differences

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--- ephys_pipeline:pipeline_overview [2017/10/24 17:35] – lukas.schneider
+++ ephys_pipeline:pipeline_overview [2021/12/14 13:42] (current) – delete lukas.schneider
@@ Line 1: / Line 1: @@
-====== Waveclus pipeline ======
-  - Fill in [[ephys_pipeline:electrode_depth_file|Electrode depth file]]
-  - Create waveclus pre-clustering files (implemented in [[ephys_pipeline:phys_gui|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 [[ephys_pipeline:phys_gui|phys_gui]])
-  - Check and clean PLX file AND TAKE NOTES (single/SNR/stability rating)
-  - Create combined (phys+behavior) files (implemented in [[ephys_pipeline:phys_gui|phys_gui]])
-  - Plot single unit tuning assuming cells are unique in every block (implemented in [[ephys_pipeline:phys_gui|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 [[ephys_pipeline:same_cells_file|Same cells file]]
-  - Automatically create [[ephys_pipeline:excel_table|Excel sorting table]]
-  - Complete [[ephys_pipeline:excel_table|Excel sorting table]] information with notes