• Y:\Projects\project\ephys\version main folder contains:
  1. population_monkey_session.mat : spike data sorted by unit for each session
  2. sites_monkey_session.mat : LFP data sorted by site for each session
  3. by_block_monkey_session.mat : body signals sorted by block for each session
  4. Mon_sorted_neurons.xls : copies of the used sorted neurons tables from dropbox
  5. keys_Monkey.mat : copy of the keys used when running ph_initiation
  6. tuning_table_combined.mat : Anova results stored in a table
  7. tuning_table_combined_CI.mat : Anova results restructured accroding to contra/ipsi definitions
  8. tuning_table_combined.xls : simplified excel table
  9. seed.mat : a saved seed to make randomizations reproducable
• Subfolders:
  1. spike_shapes : Spike shapes, firing rates over time, and ISI plots
  2. single_cell_examples : Single cell plots
  3. cell_counts : Anova results as pie plots
  4. scatter : Anova results as scatter plots (one column versus another)
  5. population_analysis : population PSTHs
  6. response timing : tuning over time plots
  7. …
• \Dropbox\DAG\phys\Monkey_phys_dpz\Sorted_neurons excel table

• ph_initiation(project,{version1,version2,…})
  1. loop per monkey
  2. read in general settings → project settings → version settings
  3. run ph_session_processing (core function)
     • read in data from Y:\Data\Monkey_phys_combined_monkeypsych_TDT
     • run monkeypsych_analyze for saccade detection etc.
     • run ph_run_state_alignment_per_trial
       1. takes over relevant trial and state (event) information
       2. combines it with Sorted Neuron table information
       3. !! Copies last 1 second of spikes to beginning of next trial
       4. !! Cuts and appends last 1 second of streams to beginning of next trial
       5. !! excludes trials without physiology data And/or NOT matching condition
     • resort data by unit/site/block
     • plot waveforms/ISI/FR_across time per unit
     • exclude units dependent on excel entries (SNR/stability/single rating)
     • plot waveforms/ISI/FR_across time per unit again for remaining units
     • run ANOVAs (ph_ANOVAS)
     • create single cell plots (ph_plot_unit_per_condition)
     • save files per session
  4. format tuning table (create tuning_table_combined_CI.mat and tuning_table_combined.xls)
  5. ph_get_filelist for crossreferencing with behavior
  6. ph_initiate_population_analysis also runs population analysis

• Very important: In additi

hmm