Health and Medicine

File Format
Name	Health and Medicine
Ontology	Electronic File Formats Health and Medicine

Biomedical signals (time series)

• ACQ (AcqKnowledge)
• BCI2000 (The BCI2000 project)
• BioSemi (BDF) data format
• BKR (EEG data format)
• CFWB (Chart Data File Format)
• DICOM-Waveform (An extension of Dicom for storing waveform data)
• ecgML (A markup language for electrocardiogram data acquisition and analysis)
• EDF/EDF+ (European Data Format)
• FEF (File Exchange Format for Vital signs, CEN TS 14271)
• General Data Format for Biosignals
  • GDF v1.x (General Data Format for biomedical signals - Version 1.x)
  • GDF v2.x (The General Data Format for biomedical signals - Version 2.x)
• HL7aECG (Health Level 7 v3 annotated ECG)
• MEF (Multiscale Electrophysiology File Format)
• OpenXDF (Open Exchange Data Format)
• SCP-ECG (Standard Communication Protocol for Computer assisted electrocardiography)
• SIGIF (A digital SIGnal Interchange Format)
• WFDB (Format of Physiobank)

CPAP and oximeters (sleep apnea treatment)

These devices generally use proprietary data formats. The SleepyHead open-source software can read some of them.

• ChoiceMMed MD300W1
• Contec CMS50D
• DeVilbiss Intellipap
• Fisher & Paykel Icon
• Philips Respironics System One
• ResMed S9
• Weinmann SOMNOsoft2

Genetic data

• 23andMe
• Complete Genomics

See Scientific Data formats#Biological for more formats

Health & Fitness Tracking (consumer)

• Apple Health
  • Apple Health Export
• Fitbit
• Google Fit
• Microsoft Health and Fitness

See also Smartwatch

Medical Imaging

• Analyze AVW
• Aperio SVS
• BioRad confocal image
• BRIK/HEAD (Voxel data from AFNI programs, dual-file (data and metadata, repectively))
• DeltaVision
• DICOM (Digital Imaging and Communications in Medicine (.dcm))
• gii (NIfTI offspring for brain surface data, single-file (combined data and meta-data) style)
• IMG/HDR (ANALYZE or NIfTI voxel data, dual-file (separate data and metadata, respectively))
• MGH (uncompressed)mgh
• MGZ (zip-compressed)
• MINC (Medical Imaging NetCDF format; since version 2.0, based on HDF5 (.mnc))
• MRC (Medical Research Council)
• NII (Neuroimaging Informatics Technology Initiative (NIfTI) voxel data, single-file (combined data and metadata))
• OME-TIFF (Open Microscopy Imaging format)
• OME-XML (Open Microscopy Imaging format)
• OST (Open Spatio-Temporal) (extensible, open alternative for microscope images)
• SDM (Signed Differential Mapping- brain maps(.sdm))
• TRK (Vector data describing tracts of neurons, used by TrackVis)

Medical Record Keeping and Transaction Processing

• Prescription Drug Event (PDE)
• TIBCO Foresight HIPAA Validator Validation Profile File (APF)

Optical

• Eyeglass file format (Ross Spencer) - file format invented by digital preservation researcher to demonstrate how to create file formats

Links

• NHS England patients: how to opt-out from having your health data disclosed
• NHS data blunders mean you can't trust Care.data