ephys_pipeline:pipeline_overview
Differences
This shows you the differences between two versions of the page.
Both sides previous revisionPrevious revisionNext revision | Previous revision | ||
ephys_pipeline:pipeline_overview [2017/10/26 07:57] – lukas.schneider | ephys_pipeline:pipeline_overview [2021/12/14 13:42] (current) – delete lukas.schneider | ||
---|---|---|---|
Line 1: | Line 1: | ||
- | ====== Ephys pipeline overview ====== | ||
- | |||
- | ===== Folder structure ===== | ||
- | * Y: | ||
- | * Y: | ||
- | * Y: | ||
- | * Y: | ||
- | |||
- | ===== Plexon file naming ===== | ||
- | \\ Session_blocks_N.plx are based on online snippets | ||
- | \\ Session_realigned_blocks_N.plx are based on realigned online snippets | ||
- | \\ Session_from_BB_blocks_N.plx are based on waveclus clustering | ||
- | \\ Importantly, | ||
- | |||
- | ===== Waveclus pipeline ===== | ||
- | |||
- | - Fill in [[ephys_pipeline: | ||
- | - Create waveclus pre-clustering files (implemented in [[ephys_pipeline: | ||
- | - Run waveclus and sort for all channels, don’t forget to save (wave_clus3new3, | ||
- | * Preferentially separate spike shapes in difficult cases | ||
- | - Create plxfiles from WC (implemented in [[ephys_pipeline: | ||
- | - Check and clean PLX file AND TAKE NOTES (single/ | ||
- | - Now we need to 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). For that purpose it might be useful to | ||
- | * Create combined (phys+behavior) files (implemented in [[ephys_pipeline: | ||
- | * Plot single unit tuning assuming cells are unique in every block (implemented in [[ephys_pipeline: | ||
- | * Re-sort PLX file (combining same cells sort codes of same block same channel) | ||
- | * Optional for cases where it was not clear if the " | ||
- | - If you have finalized the sorting, create combined (phys+behavior) files (implemented in [[ephys_pipeline: | ||
- | - Fill in [[ephys_pipeline: | ||
- | - Automatically update the automatic_sorting sheet from the [[ephys_pipeline: | ||
- | - Copy the automatic_soting entries to the final_sorting sheet of the [[ephys_pipeline: | ||
- | |||
ephys_pipeline/pipeline_overview.1509004672.txt.gz · Last modified: 2022/12/29 07:15 (external edit)