LOCI Software

Packages

loci.apps	Miscellaneous applications written using the LOCI Java packages.
loci.apps.slim	Slim Plotter: a tool for visualization of spectral lifetime data.
loci.checks	LOCI's Checkstyle extensions, for checking source code style.
loci.formats	Bio-Formats: a library for reading and writing popular microscopy file formats.
loci.formats.auto	Package containing code for autogenerating other Bio-Formats code.
loci.formats.cache	Package containing Bio-Formats caching logic, for managing subsets of large collections of image planes in memory.
loci.formats.codec	Package containing Bio-Formats compression and decompression logic.
loci.formats.gui	Package containing Bio-Formats graphical user interface code.
loci.formats.in	Package containing Bio-Formats file format readers.
loci.formats.meta
loci.formats.ome	Package containing Bio-Formats OME-related logic for OME-XML metadata, and database import, upload and download.
loci.formats.out	Package containing Bio-Formats file format writers.
loci.formats.tools	Package containing utility methods corresponding to the Bio-Formats command line tools.
loci.jvmlink	JVMLink: a library for communicating between a Java Virtual Machine and other programs (e.g., C++ applications) via IP over localhost (or remotely).
loci.ome.editor	OME Metadata Editor: an application for exploration and editing of OME-XML and OME-TIFF metadata.
loci.ome.notes	OME Notes: a library for flexible organization and presentation of OME-XML metadata within a graphical browser and editor interface.
loci.ome.notes.editor
loci.ome.util	Package for OME-related utility classes.
loci.ome.viewer	OME Metadata Viewer tool for simple exploration of OME-XML metadata.
loci.plugins	LOCI Plugins: a collection of plugins for ImageJ.
loci.tests	Base package for automated and manual testing of the LOCI software packages.
loci.tests.testng	Package for automated testing of the LOCI software packages using TestNG.
loci.visbio	VisBio: a multi-purpose biological analysis tool.
loci.visbio.data	Package handling VisBio's core data functions.
loci.visbio.ext	A package for interfacing VisBio with external code, including command line calls and MATLAB modules.
loci.visbio.help	VisBio's built-in help.
loci.visbio.ome	A package for interfacing VisBio with the Open Microscopy Environment.
loci.visbio.overlays	A package for drawing overlays in VisBio.
loci.visbio.overlays.test
loci.visbio.state	A package for managing VisBio's program state.
loci.visbio.util	A package containing miscellaneous useful utility routines for VisBio.
loci.visbio.util.test
loci.visbio.view	Package handling VisBio's core display functions.