Import raw kilosort4 data
import.kilo4.RdBase function to import raw kilosort4 and accompanying stimulus data. The function looks for a csv file stim_data_file and looks for the following files in folder_path/kilosort4:
- spike_positions.npy
2D array giving the x and y position of each spike
- spike_clusters.npy
integer giving the cluster number of each spike
- spike_times.npy
sample number the spike occurred at
- cluster_group.tsv
2D array giving status of each cluster (0=noise, 1=MUA, 2=Good, 3=unsorted), hand-curated
- cluster_info.tsv
2D array giving the automatic output of kilosort4. This file not needed if cluster_group.tsv has data.
- includeVector.mat
MATLAB file giving whether each cluster is stimulus-responsive (1) or not (0)
Usage
import.kilo4(
folder_path,
stim_data_file,
recording_Fq_MATLAB = 30303,
trial_time_start = -100,
trial_time_end = 400,
verbose = TRUE
)Arguments
- folder_path
Path to the kilosort4 output files
- stim_data_file
Path to the stimulus event data file
- recording_Fq_MATLAB
Sampling frequency of the MATLAB recording
- trial_time_start
Time to begin trial (ms), relative to stimulus onset
- trial_time_end
Time to end trial (ms), relative to stimulus onset
- verbose
Print report on imported data?