**************** User Information **************** Using Bio-Formats with ImageJ and Fiji ====================================== The following sections explain the features of Bio-Formats and how to use it within ImageJ and Fiji: .. toctree:: :maxdepth: 1 :titlesonly: imagej/index fiji/index imagej/features imagej/installing imagej/load-images imagej/managing-memory Command line tools ================== The Bio-Formats Command line tools (bftools.zip) provide a complete package for carrying out a variety of tasks: .. toctree:: :maxdepth: 1 :titlesonly: comlinetools/index comlinetools/display comlinetools/conversion comlinetools/xml-validation comlinetools/edit comlinetools/domainlist comlinetools/formatlist comlinetools/ijview comlinetools/xmlindent comlinetools/mkfake OMERO ===== OMERO 5 uses Bio-Formats to read original files from over 140 file formats. Please refer to the :products_plone:`OMERO ` documentation for further information. Many other software packages can use Bio-Formats to read and write microscopy formats (click on the package for further details): Image server applications ========================= .. toctree:: :maxdepth: 1 :titlesonly: bisque/index ome-server/index Libraries and scripting applications ==================================== .. toctree:: :maxdepth: 1 :titlesonly: farsight/index i3dcore/index imglib/index itk/index qu-matlab/index Numerical data processing applications ====================================== .. toctree:: :maxdepth: 1 :titlesonly: octave/index idl/index knime/index matlab/index visad/index Visualization and analysis applications ======================================= .. toctree:: :maxdepth: 1 :titlesonly: imaris/index cellprofiler/index comstat2/index endrov/index focalpoint/index graphic-con/index icy/index imago/index iqm/index macnif/index micromanager/index mipav/index vaa3d/index visbio/index xuvtools/index