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Hierarchical Data Format (HDF) is a set of file formats (HDF4, HDF5) designed to store and organize large amounts of data.Originally developed at the U.S. National Center for Supercomputing Applications, it is supported by The HDF Group, a non-profit corporation whose mission is to ensure continued development of HDF5 technologies and the continued accessibility of data stored in HDF.
The classic format was used in the first netCDF release, and is still the default format for file creation. The 64-bit offset format was introduced in version 3.6.0, and it supports larger variable and file sizes. The netCDF-4/HDF5 format was introduced in version 4.0; it is the HDF5 data format, with some restrictions.
Data format refers to the raw data to be manipulated, the description of the data is separate from the values themselves. It distinguishes the metadata (Light data) and the values themselves (Heavy data). [1] Light data is stored using XML, Heavy data is stored using HDF5, [1] so some information is stored redundantly in both XML and HDF5.
The Allotrope Foundation curates a HDF5 and Triplestore based file format named Allotrope Data Format (ADF) and a flat JSON representation ASM short for Allotrope Simple Model. Both are based on the Allotrope Foundation Ontologies (AFO) and contain schemas for mass spectrometry and chromatography coupled with MS detectors.
^ The primary format is binary, but text and JSON formats are available. [8] [9] ^ Means that generic tools/libraries know how to encode, decode, and dereference a reference to another piece of data in the same
The format is a conceptual entity established by the documentation; the software is a physical product supplied to enable developers to access and produce data recorded in that format. The CGNS system is designed to facilitate the exchange of data between sites and applications, and to help stabilize the archiving of aerodynamic data.
It was part of the Swift basecaller, an open source package for primary data analysis on next-gen sequence data "from images to basecalls". The FAST5 format was invented as an extension of the FAST4 format. The FAST5 files are Hierarchical Data Format 5 (HDF5) files with a specific schema defined by Oxford Nanopore Technologies (ONT). [12]
XMDF (eXtensible Model Data Format) is a library providing a standard format for the geometric data storage of river cross-sections, 2D/3D structured and unstructured meshes, geometric paths through space, and associated time data. XMDF uses HDF5 for cross-platform data storage and compression.