Meijer et al Layer 6b mediates state-dependent changes in brain activity and effects of orexin on waking and sleep - ANALYSIS FILES

Matlab scripts and functions:
Resampling: This script resamples the EEG data that have been exported from the TDT recording software. It uses the TDTSDK Matlab package that is provided by TDT. The script loops through all animals, recording days and channels, obtains the original sampling rate from the raw data tank and resamples the signals to 256 Hz. The signals are saved per animal, recording day and EEG channel.BL_PSDperVS: This script calculates EEG spectral power density per epoch with the PWelch function in Matlab. It loads the signals that have been exported from the TDT software and resampled in Matlab. It loops through all animals and recording days individually. The signal is zero padded if it is shorter than 24 hours and the signal is cut off at 24 hours if it is longer than 24 hours. There is the option to apply a notch filter, which is specified in the top lines in the script. The result is saved in a file per animal, per recording day and per channel (frontal EEG, occipital EEG). SleepEpisodes: This function finds the number and duration of uninterrupted episodes of NREM sleep, REM sleep, and wakefulness, using preset variables such as the maximal duration of interruptions that are allowed.BriefAwakenings: This function finds the number of brief awakenings, short stretches of epochs scored as wakefulness during episodes of sleep. The maximal duration of interruptions that are allowed to still classify the sleep episode as a single episode despite the interruption (and the interruption not as a new wake episode) are specified in the top lines of the script.Prism file
Baseline_SleepArchitecture: Prism file with statistical analysis of sleep architecture parametres