├── .DS_Store ├── .bash_profile ├── .flake8 ├── .gitignore ├── LICENSE.md ├── README.md ├── audio ├── .ipynb_checkpoints │ └── audio_event_extraction-checkpoint.ipynb ├── audio_event_extraction.ipynb ├── basic_events.py └── plot_audio_details.py ├── dj_schemas ├── changepoint │ ├── ChangePoint.m │ └── dj_setup.m ├── glm_hmm_schema.py ├── humanChoiceWorld │ ├── humanChoiceWorld_extractor_renamefiles.py │ ├── humanChoiceWorld_schemas.py │ └── human_biasedChoiceWorld_summary.py ├── psytrack │ ├── .ipynb_checkpoints │ │ └── psytrack_from_datajoint-checkpoint.ipynb │ ├── IBL_DataAnalysisExample.ipynb │ ├── IBL_Data_Processing.py │ ├── ONE_to_PsyTrack.ipynb │ ├── README.md │ ├── psytrack_from_datajoint.ipynb │ └── psytrack_schema.py └── traininig_criteria │ ├── training_criteria.py │ ├── training_criteria_compare.py │ ├── training_criteria_results.py │ └── training_criteria_schemas.py ├── histology_metrics ├── __init__.py ├── metrics_insertions_histology.py └── metrics_subjects_histology.py ├── matlab ├── alf │ ├── readAlf.m │ ├── readAlf_allData.m │ └── saveAlf_CSHL.m ├── helper │ ├── GetGoogleSpreadsheet.m │ ├── bootstrappedCI.m │ ├── dataset2table.m │ ├── dpr.m │ ├── fitErf.m │ ├── fitErf_singleLapse.m │ ├── fitLogistic.m │ ├── gramm_helperfuncs.m │ └── isLearned.m ├── plotting │ ├── .ipynb_checkpoints │ │ ├── citricacid_performance-checkpoint.ipynb │ │ ├── pyBpod_water_calibration-checkpoint.ipynb │ │ └── weightmonitoring_citricacid-checkpoint.ipynb │ ├── SfN2018_behaviorPlots.m │ ├── anneDFG_plotPsychFuncs.m │ ├── basicChoiceWorldPlot.m │ ├── behavior_learning.m │ ├── biasedBlocks.m │ ├── binoCI.m │ ├── check_session_upload.m │ ├── fitErf.m │ ├── lapserates_100prct_contrast.m │ ├── lapses_single_vs_separate.m │ ├── overallBias_perRig_CSHL.m │ ├── plotChronoFunc.m │ ├── plotLisbon.m │ ├── plotPsychFunc.m │ ├── plotPsychFuncs_overview.m │ ├── plotShapingForaging.m │ ├── plotShapingRandom.m │ ├── plotShaping_perBatch.m │ ├── plotTraining_choiceWorld.m │ ├── plotTraining_choiceWorld_ONE.m │ ├── pyBpod_water_calibration.ipynb │ ├── quantifyDisengagement.m │ ├── quantifyDisengagement_perSession.m │ ├── quantifyTrainingSuccess.m │ ├── rewardShiftedPsychometricFunction.m │ ├── suplabel.m │ └── weightMonitoring.m └── water_volume_by_weight.m ├── probe_geometry_analysis ├── __init__.py ├── ch_disp_data.py ├── ch_disp_plots.py ├── channels_displacement_data.py ├── channels_displacement_plots.py ├── probe_geometry_data.py └── probe_geometry_plots.py ├── python ├── .gitignore ├── .ipynb_checkpoints │ ├── Behavior-checkpoint.ipynb │ ├── Significant_visual_neurons-checkpoint.ipynb │ ├── age_at_recording-checkpoint.ipynb │ ├── ambient_sensor_monitoring-checkpoint.ipynb │ ├── ephysCW_probLeft_check-checkpoint.ipynb │ ├── ephys_criterion_check-checkpoint.ipynb │ ├── ephys_yield_anneu-checkpoint.ipynb │ ├── line_strain_missing-checkpoint.ipynb │ ├── neuron_yield-checkpoint.ipynb │ ├── session_qc_overview-checkpoint.ipynb │ ├── sessions_bylab_coronavirus-checkpoint.ipynb │ ├── trajectories_accuracy-checkpoint.ipynb │ ├── trajectories_for_histology-checkpoint.ipynb │ └── trajectory_listings-checkpoint.ipynb ├── Behavior.ipynb ├── RSI_location_histograms.py ├── RSI_metric_analysis.py ├── RSI_spike_analysis.py ├── RSI_test.py ├── RSI_test.py.lprof ├── RT_analysis │ ├── RT_dist_plot.py │ └── false_start_psychometric.py ├── Significant_visual_neurons.ipynb ├── __init__.py ├── age_at_recording.ipynb ├── ambient_sensor_monitoring.ipynb ├── behav_criterion.py ├── behav_in_ephys.gyp ├── behavioral_variability_overlabs.py ├── biased_blocks.py ├── brain_regions_channels.py ├── contrast_sets.py ├── decoding_lab_membership.py ├── dj_tools.py ├── dj_tools.pyc ├── end_session_criteria.py ├── end_status_analysis.py ├── ephysCW_probLeft_check.ipynb ├── ephys_criterion_check.ipynb ├── ephys_yield_anneu.ipynb ├── find_vis_neurons.py ├── fit_learning_curves.py ├── fitted_parameters.csv ├── insertion_repeated_site.py ├── is_learned.py ├── latest_training_status.ipynb ├── learning_rate.py ├── line_strain_missing.ipynb ├── neuron_yield.ipynb ├── planned_vs_actual_penetrations.gyp ├── plot_my_insertions.gyp ├── post_weekend_water_alyx.py ├── probe_performance_over_sessions.py ├── psychofit.py ├── psychresults_neuronex.py ├── raw_data_qc.py ├── representational_similarity.py ├── rnn_model │ └── IBL_task.ipynb ├── rs_neurons_summary_dj.py ├── sequence_analysis.py ├── session_qc_overview.ipynb ├── sessions_bylab_coronavirus.ipynb ├── sucrose_concentration.py ├── temperature.py ├── trained_psychfuncs.py ├── trajectories_accuracy.ipynb ├── trajectories_accuracy.pdf ├── trajectories_for_histology.ipynb ├── trajectories_from_alyx.csv ├── trajectory_listings.ipynb ├── trajectory_overview.csv ├── trialcounts_malevsfemale.py ├── wheel_plots.py └── widefield_dlc.ipynb ├── targetting_accuracy ├── histology_analysis.py ├── manipulator_vs_histology.png ├── planned_vs_histology.png ├── 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