Differences

This shows you the differences between two versions of the page.

--- ephys_pipeline:phys_gui [2017/10/24 15:28] – lukas.schneider
+++ ephys_pipeline:phys_gui [2022/01/11 13:24] (current) – removed lukas.schneider
@@ Line 1: / Line 1: @@
-====== Phys gui ======
-Initiate phys_gui by using the command phys_gui_working
-\\ A figure will pop up which looks something like this:
-{{ :ephys_pipeline:phys_gui.png?nolink&400 |}}
-Select your monkey from the dropdown menu
-\\ Select the session folders you want to process afer hitting the "Add date from list" button
-\\ If you hit "Run", phys_gui will do all the preprocessing that you checked (see below) on the selected folders
-====== Rename folders ======
-In later TDT software versions (synapse - setup 3), the folder naming is different. For converting folders recorded with synapse to the old (our standard) folder naming, check the box "RenameSynapseTankNameToOldTankFormat".
-====== Automatic waveclus clustering ======
-If you want to use the waveclus pipeline, you first need to create waveclus sortcodes. You can do so by checking "WCFromBB"
-====== Create Plexon files from snippets ======
-If you want (or have) to use the online detected snippets, check "PLXFromSnippets". If you first want to Realign your snippets to the minima, check "PLXFromRealignedSnippets" instead.
-====== Create Plexon files from waveclus sortcodes ======
-After you sorted with waveclus, you can create a plexon file from your saved sortcodes. Check "PLXFromWCFromBB"
-====== Create TDT sortcode from PLX ======
-In case you used the online snippets to create your plexon files, you can simply add another sortcode attached to the original TDT blocks.
-\\ **Something missing here**
-====== Combine ephys and behavioral data ======
-After you are done with sorting, you can synchronize your recorded data with behavioral data, adding LFP and spike information in the trial structure format that monkeypsych uses.
-\\ In order to indicate which type of sorting you want to use, select one option in the "Choose spikes" section
-\\ "Snippets" uses the sortcodes based on the original snippets
-\\ "Realigned" uses the sortcodes based on realigned snippets
-\\ "FromBB" uses the sortcodes based on WC clustered PLX files
-\\ Chose "none" in case you are only interested in LFP. No spikes will be added to your combined data.