Unifying biological image formats with HDF5

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Unifying biological image formats with HDF5

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Communications of the ACM archive
Volume 52 , Issue 10 (October 2009) table of contents
A View of Parallel Computing

SECTION: Practice table of contents

Pages 42-47

Year of Publication: 2009

ISSN:0001-0782

Authors

Matthew T. Dougherty	National Center for Macromolecular Imaging
Michael J. Folk	The HDF Group
Erez Zadok	Stony Brook University
Herbert J. Bernstein	Dowling College
Frances C. Bernstein	Brookhaven National Laboratory
Kevin W. Eliceiri	University of Wisconsin-Madison
Werner Benger	Louisiana State University
Christoph Best	European Bioinformatics Institute

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ACM New York, NY, USA

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ABSTRACT

The biosciences need an image format capable of high performance and long-term maintenance. Is HDF5 the answer?

REFERENCES

Note: OCR errors may be found in this Reference List extracted from the full text article. ACM has opted to expose the complete List rather than only correct and linked references.

	1	BioHDF; http://www.geospiza.com/research/biohdf/.
	2	Crystallographic Information Framework. International Union of Crystallography; http://www.iucr.org/resources/cif/.
	3	DICOM (Digital Imaging and Communications in Medicine); http://medical.nema.org.
	4	EMDB (Electron Microscopy Data Bank); http://emdatabank.org/.
	5	FITS (Flexible Image transport System); http://fits.gsfc.nasa.gov/.
	6	HDF (Hierarchical Data Format); http://www.hdfgroup.org.
	7	MEDSBIO (Consortium for Management of Experimental Data in Structural Biology); http://www.medsbio.org.
	8	METS (Metadata Encoding and Transmission Standard); http://www.loc.gov/standards/mets/.
	9	MPEG (Moving Picture Experts Group); http://www.chiariglione.org/mpeg/.
	10	netCDF (network common Data form); http://www.unidata.ucar.edu/software/netcdf/.
	11	NeXus (neutron, x-ray and muon science); http://www.nexusformat.org.
	12	NFS (Network File System); http://www.ietf.org/rfc/rfc3530.txt.
	13	OAIS (Open Archival Information System); http://nost.gsfc.nasa.gov/isoas/overview.html.
	14	OME (Open Microscopy Environment); http://www.openmicroscopy.org/.
	15	RDF (Resource Description Framework); http://www.w3.org/RDF/.