Uses of Interface
loci.formats.IFormatHandler

Packages that use IFormatHandler

Package	Description
loci.formats	Bio-Formats: a library for reading and writing popular microscopy file formats.
loci.formats.gui	Package containing Bio-Formats graphical user interface code.
loci.formats.in	Package containing Bio-Formats file format readers.
loci.formats.in.LeicaMicrosystemsMetadata
loci.formats.out	Package containing Bio-Formats file format writers.
loci.plugins.util	Utility classes and methods for the Bio-Formats plugins for ImageJ.

Uses of IFormatHandler in loci.formats

Subinterfaces of IFormatHandler in loci.formats

Modifier and Type	Interface and Description
interface	IFormatReader Interface for all biological file format readers.
interface	IFormatWriter Interface for all biological file format writers.

Classes in loci.formats that implement IFormatHandler

Modifier and Type	Class and Description
class	ChannelFiller For indexed color data representing true color, factors out the indices, replacing them with the color table values directly.
class	ChannelMerger Logic to automatically merge channels in a file.
class	ChannelSeparator Logic to automatically separate the channels in a file.
class	DelegateReader DelegateReader is a file format reader that selects which reader to use for a format if there are two readers which handle the same format.
class	DimensionSwapper Handles swapping the dimension order of an image series.
class	FileStitcher Logic to stitch together files with similar names.
class	FormatHandler Abstract superclass of all biological file format readers and writers.
class	FormatReader Abstract superclass of all biological file format readers.
class	FormatWriter Abstract superclass of all biological file format writers.
class	ImageReader ImageReader is the master file format reader for all supported formats.
class	ImageWriter ImageWriter is the master file format writer for all supported formats.
class	Memoizer ReaderWrapper implementation which caches the state of the delegate (including and other ReaderWrapper instances) after Memoizer.setId(String) has been called.
class	MinMaxCalculator Logic to compute minimum and maximum values for each channel.
class	ReaderWrapper Abstract superclass of reader logic that wraps other readers.
class	SubResolutionFormatReader Abstract superclass of all biological file format readers that can handle image pyramids.
class	TileStitcher
class	WrappedReader Helper class for readers which wrap other readers.
class	WriterWrapper Abstract superclass of writer logic that wraps other writers.

Uses of IFormatHandler in loci.formats.gui

Classes in loci.formats.gui that implement IFormatHandler

Modifier and Type	Class and Description
class	BufferedImageReader A reader wrapper for reading image planes as BufferedImage objects.
class	BufferedImageWriter A writer wrapper for writing image planes from BufferedImage objects.

Methods in loci.formats.gui with parameters of type IFormatHandler

Modifier and Type	Method and Description
static javax.swing.JFileChooser	GUITools.buildFileChooser(IFormatHandler handler) Constructs a file chooser for the given file format handler.
static javax.swing.JFileChooser	GUITools.buildFileChooser(IFormatHandler handler, boolean preview) Constructs a file chooser for the given file format handler.
static javax.swing.filechooser.FileFilter[]	GUITools.buildFileFilters(IFormatHandler handler) Constructs a list of file filters for the given file format handler.

Uses of IFormatHandler in loci.formats.in

Classes in loci.formats.in that implement IFormatHandler

Modifier and Type	Class and Description
class	AFIReader AFIReader is the file format reader for Aperio AFI files.
class	AIMReader AIMReader is the file format reader for .aim files.
class	AliconaReader AliconaReader is the file format reader for Alicona AL3D files.
class	AmiraReader This is a file format reader for AmiraMesh data.
class	AnalyzeReader AnalyzeReader is the file format reader for Analyze 7.5 files.
class	APLReader APLReader is the file format reader for Olympus APL files.
class	APNGReader APNGReader is the file format reader for Animated Portable Network Graphics (APNG) images.
class	ARFReader ARFReader is the file format reader for Axon Raw Format (ARF) files, produced by INDEC BioSystems's Imaging Workbench software.
class	AVIReader AVIReader is the file format reader for AVI files.
class	BaseTiffReader BaseTiffReader is the superclass for file format readers compatible with or derived from the TIFF 6.0 file format.
class	BaseZeissReader BaseZeissReader contains common functionality required by readers for Zeiss AxioVision formats.
class	BDReader BDReader is the file format reader for BD Pathway datasets.
class	BDVReader Reader for BDV files.
class	BIFormatReader BIFormatReader is the superclass for file format readers that use java.awt.image.BufferedImage as the native data type.
class	BioRadGelReader BioRadGelReader is the file format reader for Bio-Rad gel files.
class	BioRadReader BioRadReader is the file format reader for Bio-Rad PIC files.
class	BioRadSCNReader BioRadSCNReader is the reader for Bio-Rad .scn files
class	BMPReader BMPReader is the file format reader for Microsoft Bitmap (BMP) files.
class	BrukerReader BrukerReader is the file format reader for Bruker MRI files.
class	BurleighReader BurleighReader is the file format reader for Burleigh .img files.
class	CanonRawReader CanonRawReader is the file format reader for Canon RAW files.
class	CellH5Reader Reader for CellH5 (HDF) files.
class	CellomicsReader Reader for Cellomics C01 files.
class	CellSensReader CellSensReader is the file format reader for cellSens .vsi files.
class	CellVoyagerReader A bioformat reader for the Yokagawa Cellvoyager CV1000 automated microscope ( http://www.yokogawa.com/scanner/products/cv1000e.htm).
class	CellWorxReader CellWorxReader is the file format reader for CellWorx .pnl files.
class	ColumbusReader ColumbusReader is the file format reader for screens exported from PerkinElmer Columbus.
class	CV7000Reader
class	DeltavisionReader DeltavisionReader is the file format reader for Deltavision files.
class	DicomReader DicomReader is the file format reader for DICOM files.
class	DNGReader DNGReader is the file format reader for Canon DNG (TIFF) files.
class	Ecat7Reader Ecat7Reader is the file format reader for ECAT 7 files.
class	EPSReader Reader is the file format reader for Encapsulated PostScript (EPS) files.
class	FakeReader FakeReader is the file format reader for faking input data.
class	FEIReader FEIReader is the file format reader for FEI and Philips .img files.
class	FEITiffReader FEITiffReader is the file format reader for TIFF files produced by various FEI software.
class	FilePatternReader
class	FitsReader FitsReader is the file format reader for Flexible Image Transport System (FITS) images.
class	FlexReader FlexReader is a file format reader for Evotec Flex files.
class	FlowSightReader
class	FluoviewReader FluoviewReader is the file format reader for Olympus Fluoview TIFF files AND Andor Bio-imaging Division (ABD) TIFF files.
class	FujiReader FujiReader is the file format reader for Fuji LAS 3000 datasets.
class	FV1000Reader FV1000Reader is the file format reader for Fluoview FV 1000 OIB and Fluoview FV 1000 OIF files.
class	GatanDM2Reader GatanDM2Reader is the file format reader for Gatan .dm2 files.
class	GatanReader GatanReader is the file format reader for Gatan files.
class	GelReader GelReader is the file format reader for Molecular Dynamics GEL TIFF files.
class	GIFReader GIFReader is the file format reader for Graphics Interchange Format (GIF) files.
class	HamamatsuVMSReader HamamatsuVMSReader is the file format reader for Hamamatsu VMS datasets.
class	HISReader HISReader is the file format reader for Hamamatsu .his files.
class	HitachiReader HitachiReader is the file format reader for S-4800 files.
class	HRDGDFReader HRDGDFReader is the file format reader for the Gridded Data Format used by NOAA's Hurricane Research Division.
class	I2IReader I2IReader is the file format reader for I2I files.
class	ICSReader ICSReader is the file format reader for ICS (Image Cytometry Standard) files.
class	IM3Reader
class	ImaconReader ImaconReader is the file format reader for Imacon .fff (TIFF) files.
class	ImageIOReader ImageIOReader is the superclass for file format readers that use the javax.imageio package.
class	ImagicReader ImagicReader is the file format reader for IMAGIC files.
class	ImarisHDFReader Reader for Bitplane Imaris 5.5 (HDF) files.
class	ImarisReader ImarisReader is the file format reader for Bitplane Imaris files.
class	ImarisTiffReader ImarisTiffReader is the file format reader for Bitplane Imaris 3 files (TIFF variant).
class	IMODReader Reader for IMOD binary files.
class	ImprovisionTiffReader ImprovisionTiffReader is the file format reader for Improvision TIFF files.
class	ImspectorReader ImspectorReader is the file format reader for Imspector .msr files.
class	InCell3000Reader InCell3000Reader is the file format reader for InCell 3000.
class	InCellReader InCellReader is the file format reader for InCell 1000/2000 datasets.
class	INRReader INRReader is the file format reader for INR files.
class	InveonReader InveonReader is the file format reader for Inveon files.
class	IonpathMIBITiffReader IonpathMIBITiffReader is the file format reader for Ionpath MIBI TIFF files.
class	IPLabReader IPLabReader is the file format reader for IPLab (.IPL) files.
class	IPWReader IPWReader is the file format reader for Image-Pro Workspace (IPW) files.
class	IvisionReader IvisionReader is the file format reader for IVision (.IPM) files.
class	JEOLReader JEOLReader is the file format reader for JEOL files.
class	JPEG2000Reader JPEG2000Reader is the file format reader for JPEG-2000 images.
class	JPEGReader JPEGReader is the file format reader for JPEG images.
static class	JPEGReader.DefaultJPEGReader
class	JPKReader JPKReader is the file format reader for JPK Instruments files.
class	JPXReader JPXReader is the file format reader for JPX (3D JPEG-2000) images.
class	KhorosReader Reader for Khoros XV files.
class	KLBReader Reader for Keller Lab Block (KLB) files.
class	KodakReader KodakReader is the file format reader for Kodak Molecular Imaging .bip files.
class	L2DReader L2DReader is the file format reader for Li-Cor L2D datasets.
class	LeicaReader LeicaReader is the file format reader for Leica files.
class	LeicaSCNReader LeicaSCNReader is the file format reader for Leica SCN TIFF files.
class	LEOReader LEOReader is the file format reader for LEO EM files.
class	LiFlimReader LiFlimReader is the file format reader for LI-FLIM files.
class	LIFReader LIFReader is the file format reader for Leica LIF files.
class	LIMReader LIMReader is the file format reader for Laboratory Imaging/Nikon LIM files.
class	LOFReader LOFReader is the file format reader for Leica Microsystems' LOF files.
class	MetamorphReader Reader is the file format reader for Metamorph STK files.
class	MetamorphTiffReader MetamorphTiffReader is the file format reader for TIFF files produced by Metamorph software version 7.5 and above.
class	MetaxpressTiffReader MetaxpressTiffReader is the file format reader for MetaXpress .htd + TIFF files.
class	MIASReader MIASReader is the file format reader for Maia Scientific MIAS-2 datasets.
class	MicroCTReader MicroCTReader is the file format reader for VFF files from a GE MicroCT scanner.
class	MicromanagerReader MicromanagerReader is the file format reader for Micro-Manager files.
class	MikroscanTiffReader MikroscanTiffReader is the file format reader for Mikroscan TIFF files.
class	MINCReader MINCReader is the file format reader for MINC MRI files.
class	MinimalTiffReader MinimalTiffReader is the superclass for file format readers compatible with or derived from the TIFF 6.0 file format.
class	MNGReader MNGReader is the file format reader for Multiple-image Network Graphics (MNG) files.
class	MolecularImagingReader MolecularImagingReader is the file format reader for Molecular Imaging files.
class	MRCReader MRCReader is the file format reader for MRC files.
class	MRWReader MRWReader is the file format reader for Minolta MRW files.
class	NAFReader NAFReader is the file format reader for Hamamatsu Aquacosmos NAF files.
class	ND2Reader ND2Reader is the file format reader for Nikon ND2 files.
class	NDPIReader NDPIReader is the file format reader for Hamamatsu .ndpi files.
class	NDPISReader NDPISReader is the file format reader for Hamamatsu .ndpis files.
class	NiftiReader NiftiReader is the file format reader for NIfTI files.
class	NikonElementsTiffReader NikonElementsTiffReader is the file format reader for TIFF files produced by Nikon Elements.
class	NikonReader NikonReader is the file format reader for Nikon NEF (TIFF) files.
class	NikonTiffReader NikonTiffReader is the file format reader for Nikon TIFF files.
class	NRRDReader File format reader for NRRD files; see http://teem.sourceforge.net/nrrd.
class	OBFReader OBFReader is the file format reader for Imspector OBF files.
class	OIRReader OIRReader is the file format reader for Olympus .oir files.
class	OlympusTileReader OlympusTileReader is the file format reader for Olympus .omp2info files.
class	OMETiffReader OMETiffReader is the file format reader for OME-TIFF files.
class	OMEXMLReader OMEXMLReader is the file format reader for OME-XML files.
class	OpenlabRawReader OpenlabRawReader is the file format reader for Openlab RAW files.
class	OpenlabReader OpenlabReader is the file format reader for Openlab LIFF files.
class	OperettaReader OperettaReader is the file format reader for PerkinElmer Operetta data.
class	OxfordInstrumentsReader OxfordInstrumentsReader is the file format reader for Oxford Instruments .top files.
class	PCIReader PCIReader is the file format reader for SimplePCI (Compix) .cxd files.
class	PCORAWReader PCORAWReader is the file format reader for PCORAW files.
class	PCXReader PCXReader is the file format reader for PCX files (originally used by PC Paintbrush; now used in Zeiss' LSM Image Browser).
class	PDSReader PDSReader is the file format reader for Perkin Elmer densitometer files.
class	PerkinElmerReader PerkinElmerReader is the file format reader for PerkinElmer files.
class	PGMReader PGMReader is the file format reader for Portable Gray Map (PGM) images.
class	PhotoshopTiffReader PhotoshopTiffReader is the file format reader for Adobe Photoshop TIFF files.
class	PictReader PictReader is the file format reader for Apple PICT files.
class	PovrayReader PovrayReader is the file format reader for POV-Ray .df3 files.
class	PQBinReader PQBinReader is the file format reader for PicoQuant .bin files.
class	PrairieReader PrairieReader is the file format reader for Prairie Technologies' TIFF variant.
class	PSDReader PSDReader is the file format reader for Photoshop PSD files.
class	PyramidTiffReader PyramidTiffReader is the file format reader for pyramid TIFFs.
class	QTReader QTReader is the file format reader for QuickTime movie files.
class	QuesantReader QuesantReader is the file format reader for Quesant .afm files.
class	RCPNLReader
class	RHKReader RHKReader is the file format reader for RHK Technologies files.
class	SBIGReader SBIGReader is the file format reader for SBIG files.
class	ScanrReader ScanrReader is the file format reader for Olympus ScanR datasets.
class	SDTReader SDTReader is the file format reader for Becker & Hickl SPC-Image SDT files.
class	SeikoReader SeikoReader is the file format reader for Seiko .xqd/.xqf files.
class	SEQReader SEQReader is the file format reader for Image-Pro Sequence files.
class	SIFReader SIFReader is the file format reader for Andor SIF files.
class	SimplePCITiffReader SimplePCITiffReader is the file format reader for TIFF files produced by SimplePCI software.
class	SISReader SISReader is the file format reader for Olympus Soft Imaging Solutions TIFF files.
class	SlideBook7Reader
class	SlidebookReader SlidebookReader is the file format reader for 3I Slidebook files.
class	SlidebookTiffReader
class	SMCameraReader SMCameraReader is the file format reader for SM camera files.
class	SPCReader SPCReader is the file format reader for Becker & Hickl SPC-Image SPC FIFO files.
class	SPEReader SPEReader is the file format reader for Princeton Instruments SPE .spe files.
class	SpiderReader SpiderReader is the file format reader for SPIDER files.
class	SVSReader SVSReader is the file format reader for Aperio SVS TIFF files.
class	TargaReader File format reader for Truevision Targa files.
class	TCSReader TCSReader is the file format reader for Leica TCS TIFF files and their companion XML file.
class	TecanReader
class	TextReader Reader for text files containing tables of data.
class	TiffDelegateReader TiffDelegateReader is a file format reader for TIFF files.
class	TiffJAIReader TiffJAIReader is a file format reader for TIFF images.
class	TiffReader TiffReader is the file format reader for regular TIFF files, not of any specific TIFF variant.
class	TileJPEGReader Reader for decoding JPEG images using java.awt.Toolkit and TurboJPEG.
class	TillVisionReader TillVisionReader is the file format reader for TillVision files.
class	TopometrixReader TopometrixReader is the file format reader for TopoMetrix .tfr, .ffr, .zfr, .zfp, and .2fl files.
class	TrestleReader TrestleReader is the file format reader for Trestle slide datasets.
class	UBMReader UBMReader is the file format reader for UBM .pr3 files.
class	UnisokuReader UnisokuReader is the file format reader for Unisoku STM files.
class	VarianFDFReader VarianFDFReader is the file format reader for Varian FDF files.
class	VectraReader VectraReader is the reader for PerkinElmer Vectra QPTIFF data
class	VeecoReader VeecoReader is the file format reader for Veeco HDF files.
class	VentanaReader VentanaReader is the file format reader for Ventana .bif files.
class	VGSAMReader VGSAMReader is the file format reader for VG SAM .dti files.
class	VisitechReader VisitechReader is the file format reader for Visitech XYS files.
class	VolocityClippingReader VolocityClippingReader is the file format reader for Volocity library clipping files.
class	VolocityReader VolocityReader is the file format reader for Volocity library files.
class	WATOPReader WATOPReader is the file format reader for WA Technology .wat files.
class	XLEFReader XLEFReader is the file format reader for Leica Microsystems' XLEF files.
class	ZeissCZIReader ZeissCZIReader is the file format reader for Zeiss .czi files.
class	ZeissLMSReader Zeiss LMS reader for data from Zeiss CSM 700 systems.
class	ZeissLSMReader ZeissLSMReader is the file format reader for Zeiss LSM files.
class	ZeissTIFFReader ZeissTIFFReader is the file format reader for Zeiss AxioVision TIFF files and their companion XML file.
class	ZeissZVIReader ZeissZVIReader is the file format reader for Zeiss ZVI files.
class	ZipReader Reader for Zip files.

Uses of IFormatHandler in loci.formats.in.LeicaMicrosystemsMetadata

Classes in loci.formats.in.LeicaMicrosystemsMetadata that implement IFormatHandler

Modifier and Type	Class and Description
class	LMSFileReader This class can be extended by readers of Leica Microsystems file formats that include LASX generated XML (e.g.
class	MultipleImagesReader MultipleImagesReader presents a number of image files as one image reference

Uses of IFormatHandler in loci.formats.out

Classes in loci.formats.out that implement IFormatHandler

Modifier and Type	Class and Description
class	APNGWriter APNGWriter is the file format writer for PNG and APNG files.
class	AVIWriter AVIWriter is the file format writer for AVI files.
class	CellH5Writer CellH5Writer is the file format writer for CellH5 format.
class	DicomWriter DicomWriter is the file format writer for DICOM files.
class	EPSWriter EPSWriter is the file format writer for Encapsulated PostScript (EPS) files.
class	ICSWriter ICSWriter is the file format writer for ICS files.
class	ImageIOWriter ImageIOWriter is the superclass for file format writers that use the javax.imageio library.
class	JavaWriter JavaWriter is the file format writer for Java source code.
class	JPEG2000Writer JPEG2000Writer is the file format writer for JPEG2000 files.
class	JPEGWriter JPEGWriter is the file format writer for JPEG files.
class	OMETiffWriter OMETiffWriter is the file format writer for OME-TIFF files.
class	OMEXMLWriter OMEXMLWriter is the file format writer for OME-XML files.
class	PyramidOMETiffWriter PyramidOMETiffWriter is the file format writer for pyramid OME-TIFF files.
class	QTWriter QTWriter is the file format writer for uncompressed QuickTime movie files.
class	TiffWriter TiffWriter is the file format writer for TIFF files.
class	V3DrawWriter V3DrawWriter writes images in the .v3draw format for rapid I/O in Vaa3D, an open-source 3D visualization and analysis toolkit.

Uses of IFormatHandler in loci.plugins.util

Classes in loci.plugins.util that implement IFormatHandler

Modifier and Type	Class and Description
class	ImageProcessorReader A low-level reader for ImageProcessor objects.
class	VirtualReader TODO