Morgoth
morgoth
Deep-learning detection of seizures and rhythmic/periodic (IIIC) patterns in continuous EEG, with event- and recording-level probabilities.
Python
Code →
← Sleep Commons
bdsp-core · open source on GitHub
Sleep & EEG analysis code
The algorithms behind the Commons — 85 open-source tools for analyzing sleep and EEG data, from automated staging and spike detection to brain-age and outcome models. Every one links to its code, and many to the dataset it was built on.
No tools match “”.
Seizures & IIIC patterns
12Detecting and quantifying seizures and rhythmic or periodic patterns in continuous EEG.
SPaRCNet (IIIC)
IIIC-SPaRCNet
Expert-level classification of seizures and rhythmic/periodic patterns during EEG interpretation.
MATLAB
Code →
2HELPS2B
2helps2b-seizure-risk
The 2HELPS2B EEG-based seizure-risk score.
Baby Morgoth
baby_morgoth
Six-class IIIC classification for neonatal and pediatric EEG, transfer-learned from Morgoth 2.
Python
Code →
cEEG Seizure Risk
cceeg-multistate-seizure-risk
Time-dependent risk of seizures in critically ill patients on continuous EEG.
DDESVSFS (PNES screening)
ddesvsfs-pnes-screening
Screening epileptic versus functional (psychogenic non-epileptic) seizures.
Epileptiform Activity & Discharge Outcome
epileptiform-activity-discharge-outcome
Effects of epileptiform activity on discharge outcome.
Epileptiform Burden & Outcomes
epileptiform-burden-outcomes
Automated epileptiform-burden annotation and its association with outcomes.
IIIC Frequency Analysis
IIIC-Frequency-Analysis
Quantifies frequency, spatial extent, location and evolution of rhythmic and periodic EEG patterns.
MATLAB
Code →
IIIC Interrater Reliability
IIIC-IRR
Reproduces our analysis of how consistently experts identify seizures and periodic/rhythmic patterns.
MATLAB
Code →
Morgoth 2
morgoth2
Second-generation Morgoth IIIC detector, with improved models and training.
Python
Code →
Rapid IIIC Labeling GUI
Rapid_IIIC_Labeling_GUI
Interface for rapid expert labeling of IIIC segments across one or many EEGs.
MATLAB
Code →
Spikes & epileptiform discharges
9Finding and characterizing interictal epileptiform discharges.
SpikeNet
SpikeNet1
Expert-level automated detection of interictal epileptiform discharges (spikes) in EEG.
Python
Code →
CDAC Spike Detector
cdac_google
ResNet spike-detection pipeline trained with soft labels and 10-fold cross-validation.
Python
Code →
IFCN-6 Spike GUI
IFCN6
Graphical interface for annotating spikes against the IFCN-6 criteria.
MATLAB
Code →
Interpretable IED Criteria
interpretable-ied-criteria
Interpretable quantitative criteria for evaluating interictal epileptiform discharges.
NeuroBrowser
neurobrowser
Mark one example waveform (e.g. a spike) and rapidly find every similar waveform across an EEG.
Python
Code →
Noise in Diagnosing Epilepsy
Noise_in_Diagnosing_Epilepsy
Reproduces our study of noise and variability in the diagnosis of epilepsy.
Jupyter Notebook
Code →
Persyst Spike Export
Persyst_Spike_Detection
Turns Persyst .sd4 spike-detection files from MGH long-term EEG into per-recording CSV annotations.
MATLAB
Code →
Sharp Transients IRR
sharp-transients-irr
Interrater-reliability analysis for sharp transients and IEDs.
Python
Code →
SpikeNet 2
SpikeNet2
Expert-level detection of epilepsy markers in EEG on both short and long timescales.
Jupyter Notebook
Code →
Critical care & acute brain dysfunction
14Coma, cardiac arrest, hemorrhage, delirium, encephalopathy and neurotoxicity.
NESI
NESI
A continuous EEG-derived measure of acute brain dysfunction, with trained model weights.
Python
Code →
Burst-Suppression Segmentation
Burst-Suppression-Segmentation
Automatic detection of suppression periods in critically ill ICU patients.
MATLAB
Code →
cEEG in Cardiac Arrest
ceeg-multimodal-cardiac-arrest
Continuous EEG added to multimodal outcome prediction after hypoxic-ischemic injury.
Coma EEG Prognostics
hie-eeg-prognostics-1000
Prognostic EEG patterns in post-cardiac-arrest coma, in a 1,000-patient cohort.
E-CAM-S
E-CAM-S
The EEG Confusion Assessment Method Severity score for physiological delirium grading.
Jupyter Notebook
Code →
E-ICANS
E-ICANS
Learning-to-rank pipeline for automated ICANS severity from EEG.
Python
Code →
Encephalopathy Grading IRR
EGG-IRR-1.0
Interrater reliability of EEG-based encephalopathy grading.
MATLAB
Code →
GRDA / N3 Encephalopathy Model
GRDA-N3-encephaloapthy-model
Thalamocortical modeling of encephalopathic slowing and generalized rhythmic delta activity.
Python
Code →
Hypothermia EEG
Hypothermia-EEG
Reproduces our analysis of EEG in comatose post-cardiac-arrest patients under hypothermia.
MATLAB
Code →
I-CARE (deep learning)
icare-dl
Deep neural networks predicting neurological outcome in comatose patients after cardiac arrest.
MATLAB
Code →
ICANS Forecasting
ICANS-forecasting-after-CAR-T-cell-therapy
Forecasting ICANS neurotoxicity after CAR-T cell therapy from EEG.
MATLAB
Code →
SAH DCI Prediction
SAH_DCI_Prediction_EEG
Automated prediction of delayed cerebral ischemia after subarachnoid hemorrhage from EEG.
MATLAB
Code →
VE-CAM-S
VE-CAM-S
Delirium-severity score from visual EEG features.
Python
Code →
VE-ICANS
VE-ICANS
Visual-EEG-feature score for the severity of CAR-T neurotoxicity (ICANS).
Python
Code →
Sleep staging & events
12Automated sleep staging, arousal and event detection — from full PSG or a single signal.
CAISR
CAISR-App
Complete AI-based Sleep Report: automated staging, arousals, respiration and limb movements, as a downloadable app.
Python
Code →
AirGo Sleep Staging
AirGo_SleepStaging
Sleep staging from the AirGo wearable respiration sensor.
Jupyter Notebook
Code →
CAISR 2
CAISR2
Next-generation CAISR sleep-analysis models.
Python
Code →
Ordinal Sleep Depth
Ordinal-Sleep-Depth
Scores sleep depth from EEG as a continuous signal rather than discrete stages.
Python
Code →
Outcome-Oriented Staging
outcome-oriented-sleep-staging
Sleep staging optimized for clinical outcomes rather than epoch-level concordance with human scorers.
Python
Code →
PANDA
PANDA-Sleep
Pediatric Arousal Neural Detection Architecture — deep-learning arousal detection across childhood and adolescence.
Python
Code →
Pediatric SleepNet
BCH-SleepStaging
Multimodal (EEG+EOG+EMG) deep-learning sleep staging across childhood, from infants to adolescents.
Python
Code →
PhysioNet 2018 (winner)
Physionet2018_Challenge_Submission
Winning entry for the PhysioNet 2018 'You Snooze You Win' arousal-detection challenge.
Python
Code →
Sleep Staging (2000 patients)
sleep_staging_2000pts
Deep-learning sleep staging trained and validated on 2,000 patients.
Python
Code →
SleepBreathing-DL
SleepBreathing-DL
Multi-task model classifying sleep stages, apneas and arousals from a single respiratory signal.
Python
Code →
Staging + Scorability
sleep_staging_tl_scorability
Transfer learning coupled with scorability models to refine sleep-staging accuracy.
Python
Code →
Staging from ECG & Respiration
ecg_respiration_sleep_staging
Sleep staging from ECG and respiration alone, without EEG.
Python
Code →
Sleep, brain age & cognition
17Brain age, brain-health scores, spindles, and cognitive and clinical outcomes from sleep.
Philosopher's Stone
philosophers-stone
Maps one channel of overnight sleep EEG to a 1024-D brain-health latent space and a Brain Health Score for cognition, disease risk and mortality.
Python
Code →
Sleep-EEG Brain Age (BAI)
SleepEEGBasedBrainAge
The sleep-EEG Brain Age Index, now shipped in the Luna package.
Python
Code →
Brain Age & Dementia
bai-dementia
Reproducibility package: sleep-EEG brain age across diagnostic groups in ~9,800 polysomnograms.
Python
Code →
Brain Age (KoGES)
brain_age_koges
Sleep-EEG brain age in the Korean Genome and Epidemiology Study cohort.
Jupyter Notebook
Code →
Dementia from Sleep
dementia-detection-from-sleep
Detecting dementia from overnight sleep EEG.
Jupyter Notebook
Code →
Meditation & Brain Age
meditation-sleep-brain-age
Sleep-EEG brain age applied to a meditation cohort.
Python
Code →
Note-NLP Sleep Phenotyping
prophet-sleep
Note-NLP sleep phenotyping over the de-identified BDSP OMOP database, targeting the ARPA-H/SHDC variable spec.
Python
Code →
Optimal Spindle Detection
optimal-spindle-detection-cognition
Optimal spindle-detection parameters for predicting cognition.
Philosopher's Stone 2
philosophers-stone-2
Second-generation, multimodal brain-health model built on overnight sleep physiology.
Python
Code →
PSG Outcome Prediction
psg-outcome-prediction
Predicting health outcomes from polysomnography-derived features.
Python
Code →
Sleep & Cognition
sleep_cognition
Predicting cognitive function from sleep EEG with deep learning.
Jupyter Notebook
Code →
Sleep EEG & MRI
sleep_eeg_mri
Linking overnight sleep EEG to structural brain MRI.
Jupyter Notebook
Code →
Sleep EEG, MRI & Cognition
mri-cognition-eeg-wei2024
Sleep EEG, brain MRI and cognition (Wei et al., 2024, SLEEP).
Jupyter Notebook
Code →
Sleep Outcome Prediction
sleep-outcome-prediction
Reproduce PSG-based health-risk predictions, and score a new sleep recording.
Python
Code →
Sleep Phenomics Automation
sleep-phenomics-automation
Automated sleep-phenomics feature pipeline.
Python
Code →
SPiN
spin
Spindle–Oscillation Physiomarkers of Neurohealth — umbrella for SPiN datasets and analyses.
Python
Code →
Spindle Optimization
spindle_optimization
Exploring spindle-detection parameters with interactive parallel-coordinate plots.
Python
Code →
Breathing & cardiac in sleep
4Respiration, apnea, loop gain and heart-rate-variability analysis.
Breathing Stability Index
breathing-stability-index
The Breathing Stability Index, with a Python API and an EDF/HDF5 command-line tool (SLEEP 2026).
Python
Code →
Auto PSG Respiration
Auto_PSG_Respiration
Automating respiration analysis for polysomnography.
Jupyter Notebook
Code →
Breathing Self-Similarity
self_similarity
Self-similarity of breathing for high-loop-gain and central-apnea analysis.
Python
Code →
HRV Tools
hrv-tools
ECG, RR-interval and heart-rate-variability toolkit.
Python
Code →
Viewers, atlases & teaching
9Interactive EEG and PSG viewers, spectrogram atlases, and clinician-training tools.
EEG Spectrogram Atlas
eeg-spectrogram-atlas
A Primer on EEG Spectrograms — an interactive teaching atlas.
Sleep YODA
sleep-yoda
PSG viewer and sleep-analysis platform with staging, respiratory and report views.
HTML
Code →
Coma EEG Viewer (Lund)
coma-eeg-lund-viewer
Viewer for coma EEG recordings (Lund collaboration).
JavaScript
Code →
CORTEX
cortex
An adaptive Bayesian test of how well a clinician reads an EEG — it asks the most informative question next and stops once skill is certain.
Python
Code →
GULAG Lifespan EEG Atlas
gulag-eeg-atlas
A comprehensive lifespan EEG atlas with interactive clips and four-panel qEEG spectrograms.
Python
Code →
Morgoth Viewer
morgoth-viewer
EEG review application for continuous recordings processed by the Morgoth deep-learning pipeline.
Python
Code →
Morgoth Viewer (Stanford)
morgoth-stanford
Stanford deployment of the Morgoth EEG viewer.
Python
Code →
Myelin
Myelin
AI-enabled cohort-generation and discovery tool.
Python
Code →
Timeline Viewer
timeline-viewer
Timeline viewer for long-term EEG and events.
JavaScript
Code →
Models, features & signal tools
8Feature pipelines, embeddings, foundation models and signal I/O utilities.
BDSP Sleep Features
bdsp-sleep-features
Broad, versioned polysomnography feature computation for ARPA-H REST and the SHDC.
Python
Code →
edfio
edfio
Convenience functions to write EDF files from Python.
Python
Code →
EEG Multitask Embedding
eeg_multitask_embedding
Learns a single shared EEG embedding by training on several EEG-labeling tasks at once.
Python
Code →
Multitaper as Kernel Smoothing
spectral-smoothing-vs-multitaper
Multitaper spectral estimation as kernel smoothing of a tapered periodogram — proof, Python code and figures.
TeX
Code →
Omega
Omega
A transformer model for clinical EEG, with a decoder for interpreting its embeddings.
Jupyter Notebook
Code →
PSG Conversion
bdsp-psg-conversion
Convert PSG session H5s into TS-Zarr, sleep-feature JSON, OMOP rows and Parquet.
Python
Code →
Sleep Research I/O
sleep_research_io
Format sleep biosignals into a common H5 format; used for ICU-Sleep and SleepLab data.
Jupyter Notebook
Code →
TEEGLLTEEG
TEEGLLTEEG
Train and run TEEGLLTEEG, a text↔EEG language-modeling approach.
Python
Code →