MIB

(★ 8)

Microscopy Image Browser is a package for image processing, segmentation and visualization of multi-dimensional (2D-4D) microscopy datasets. It is recommended to use MIB2 (https://github.com/Ajaxels/MIB2)

File Explorer

ZIP Download

- - addColorChannel.m
  - clearContents.m
  - clearMask.m
  - clearSelection.m
  - convertDataToMouseCoordinates.m
  - convertImage.m
  - convertModel.m
  - convertMouseToDataCoordinates.m
  - copyColorChannel.m
  - createModel.m
  - cropDataset.m
  - deleteColorChannel.m
  - deleteSlice.m
  - generateModelColors.m
  - getBoundingBox.m
  - getCoordinatesOfShownImage.m
  - getCurrentSlice.m
  - getCurrentSliceNumber.m
  - getCurrentTimePoint.m
  - getData2D.m
  - getData3D.m
  - getData4D.m
  - getDataset.m
  - getDatasetDimensions.m
  - getDatasetSizeInBytes.m
  - getFullSlice.m
  - getMaterialNames.m
  - getRGBimage.m
  - getRoiCrop.m
  - getRoiCropSlice.m
  - getSlice.m
  - getSliceToShow.m
  - im_browser_dummy.jpg
  - imageData.m
  - insertEmptyColorChannel.m
  - insertSlice.m
  - invertColorChannel.m
  - mark2selection.m
  - moveMaskToSelectionDataset.m
  - moveModelToMaskDataset.m
  - moveModelToSelectionDataset.m
  - moveSelectionToMaskDataset.m
  - moveSelectionToModelDataset.m
  - moveView.m
  - plotImage.m
  - replaceDataset.m
  - replaceImageColor.m
  - resizeImage.m
  - rotateColorChannel.m
  - setCurrentSlice.m
  - setData2D.m
  - setData3D.m
  - setData4D.m
  - setDataset.m
  - setFullSlice.m
  - setMaterialNames.m
  - setRoiCrop.m
  - setRoiCropSlice.m
  - setSlice.m
  - setSliceToShow.m
  - swapColorChannels.m
  - transpose.m
  - updateAxesLimits.m
  - updateBoundingBox.m
  - updateDisplayParameters.m
  - updateImgInfo.m
  - updateParameters.m
- - imageUndo.m
- - Labels.m
- - Measure.m
- - roiRegion.m
- - affine_transform_2d_double.c
  - affine_transform_2d_double.m
  - affine_transform_2d_double.mexmaci64
  - affine_transform_2d_double.mexw64
  - getRGBvolume.m
  - image_interpolation.c
  - image_interpolation.h
  - image_interpolation.m
  - link.txt
  - makeViewMatrix.m
  - render.m
  - render_license.txt
  - volren_scrollWheelFcn.m
  - volren_WindowButtonDownFcn.m
  - volren_WindowButtonUpFcn.m
  - volren_WindowInteractMotionFcn.m
  - volren_winMouseMotionFcn.m
  - volrenToolbarSwitch_ClickedCallback.m
- backgroundRemovalGUI_Callback.m
- backgroundStrelSmoothingChk_Callback.m
- brushSuperpixelsCheck.m
- bufferToggles_cb.m
- changelayerEdit_Callback.m
- changelayerSlider_Callback.m
- changeTimeEdit_Callback.m
- changeTimeSlider_Callback.m
- channelMixerTable_CellSelectionCallback.m
- createModelBtn_Callback.m
- editbox_Callback.m
- filesListboxContext_cb.m
- getClickPoint.m
- ib_aboutDlg.fig
- ib_aboutDlg.m
- ib_addIcons.m
- ib_channelMixerTable_Callback.m
- ib_checkUpdate.fig
- ib_checkUpdate.m
- ib_cropGui.fig
- ib_cropGui.m
- ib_datasetInfoGui.fig
- ib_datasetInfoGui.m
- ib_do_backup.m
- ib_do_undo.m
- ib_getDataset.m
- ib_getSlice.m
- ib_getStack.m
- ib_labelsGui.fig
- ib_labelsGui.m
- ib_moveLayers.m
- ib_resampleGui.fig
- ib_resampleGui.m
- ib_setDataset.m
- ib_setSlice.m
- ib_setStack.m
- ib_updateCursor.m
- ib_updateFontSize.m
- im_browser_brush_scrollWheelFcn.m
- im_browser_CloseRequestFcn.m
- im_browser_filesListbox_Callback.m
- im_browser_panAxesFcn.m
- im_browser_PanelShiftBtnUpFcn.m
- im_browser_ResizeFcn.m
- im_browser_scrollWheelFcn.m
- im_browser_WindowBrushMotionFcn.m
- im_browser_WindowButtonDownFcn.m
- im_browser_WindowButtonUpFcn.m
- im_browser_WindowKeyPressFcn.m
- im_browser_WindowKeyPressFcn_BrushSuperpixel.m
- im_browser_WindowKeyReleaseFcn.m
- im_browser_winMouseMotionFcn.m
- imAdjustBtn_Callback.m
- imAdjustments.fig
- imAdjustments.m
- imageFilterDoitBtn_Callback.m
- imageFilterPopup_Callback.m
- imfiltPar1Edit_Callback.m
- imfiltPar2Edit_Callback.m
- loadModelBtn_Callback.m
- localNormSigmaSlider_Callback.m
- logList.fig
- logList.m
- magicwandMethodPopup_Callback.m
- maskShowCheck_Callback.m
- menuDatasetAlignDatasets.m
- menuDatasetBoundingBox.m
- menuDatasetCrop.m
- menuDatasetResample.m
- menuDatasetSlice.m
- menuDatasetTransform.m
- menuFileChoppedImage.m
- menuFileExportImage.m
- menuFileImportImage.m
- menuFileMakeMovie.m
- menuFileOmeroImport.m
- menuFilePreferences.m
- menuFileSaveImageAs.m
- menuFileSnapshot.m
- menuImageColorCh.m
- menuImageContrast.m
- menuImageConvert.m
- menuImageIntensity.m
- menuImageMode.m
- menuImageProfileArbitrary_Callback.m
- menuImageProfileLine_Callback.m
- menuMaskImport.m
- menuMaskInvert.m
- menuMaskLoad.m
- menuMaskSaveAs.m
- menuModelFillMembrane.m
- menuModelsExport.m
- menuModelsImport.m
- menuModelsSaveAs.m
- menuSelectionBuffer.m
- menuSelectionBufferCopy_Callback.m
- menuSelectionInterpolate.m
- menuSelectionInvert.m
- menuSelectionToMaskBorder.m
- menuToolsMeasure.m
- mib_BoundingBoxDlg.fig
- mib_BoundingBoxDlg.m
- mib_calibrateScaleBar.m
- mib_contrastContext_cb.m
- mib_inputdlg.fig
- mib_inputdlg.m
- mib_keyShortcutsDlg.fig
- mib_keyShortcutsDlg.m
- mib_measureTool.fig
- mib_measureTool.m
- mib_rescaleWidgets.m
- model_cm_Callback.m
- modelShowCheck_Callback.m
- pathEdit_Callback.m
- pixInfo_cb.m
- preferencesDlg.fig
- preferencesDlg.m
- recentDirsPopup_Callback.m
- redrawChannelMixerTable.m
- removeMaterialBtn_Callback.m
- roiAddBtn_Callback.m
- roiList_cm_Callback.m
- roiLoadBtn_Callback.m
- roiRemoveBtn_Callback.m
- roiRoiToSelectionBtn_Callback.m
- roiSaveBtn_Callback.m
- roiShowCheck_Callback.m
- roiTypePopup_Callback.m
- saveModelToolbar_ClickedCallback.m
- scrollbarClick_Callback.m
- segmSelectedOnlyCheck_Callback.m
- segmTable_CellSelectionCallback.m
- selectionButton_Callback.m
- selectionClearBtn_Callback.m
- selectionDilateBtn_Callback.m
- selectionErBtn_Callback.m
- selectionFillBtn_Callback.m
- seltypePopup_Callback.m
- smoothImage_Callback.m
- toolbar_zoomBtn.m
- toolbarInterpolation.m
- toolbarPlaneToggle.m
- toolbarResizingMethod.m
- unFocus.m
- update_drives.m
- update_filelist.m
- updateGuiWidgets.m
- updateMIB.fig
- updateMIB.m
- updateSegmentationTable.m
- zoomEdit_Callback.m
- - anDiffOptionsDlg.fig
  - anDiffOptionsDlg.m
  - anDiffOptionsDlg_parameters.mat
  - CoherenceFilter.m
  - compile_c_files.m
  - license.txt
- - compile_c_files.m
  - license.txt
  - msfm.m
  - shortestpath.m
  - skeleton.m
- - eig2image.m
  - eig3volume.c
  - eig3volume.m
  - eig3volume.mexmaci64
  - eig3volume.mexw32
  - eig3volume.mexw64
  - frangi_license.txt
  - FrangiFilter2D.m
  - FrangiFilter3D.m
  - Hessian2D.m
  - Hessian3D.m
  - imgaussian.c
  - imgaussian.m
  - imgaussian.mexmaci64
  - imgaussian.mexw32
  - imgaussian.mexw64
- - ib_MembraneDetection.fig
  - ib_MembraneDetection.m
  - mib_Classifier.fig
  - mib_Classifier.m
  - mib_Classifier2.fig
- - compile_c_files.m
  - drawregionboundaries.m
  - maskimage.m
  - maxflow.m
  - maxflow_license.txt
  - maxflow_v222.m
  - maxflowmex.mexw64
  - maxflowmex_v222.cpp
  - maxflowmex_v222.mexmaci64
  - maxflowmex_v222.mexw64
  - slicmex.c
  - slicmex.mexmaci64
  - slicmex.mexw64
  - slicmex_license.txt
  - slicsupervoxelmex.c
  - slicsupervoxelmex.mexmaci64
  - slicsupervoxelmex.mexw64
  - slicsupervoxelmex_byte.c
  - slicsupervoxelmex_byte.mexmaci64
  - slicsupervoxelmex_byte.mexw64
- anisodiff.m
- do_andiff_filtering.m
- do_andiff_filtering_backup.m
- do_diplib_andiff_filtering.m
- get_black_white_filter.m
- getFrangiMask.m
- getMorphMask.m
- getStrelMask.m
- ib_anisotropicDiffusion.m
- ib_autoBrightness.m
- ib_contrastCLAHE.m
- ib_contrastNormalizationMemoryOptimized.m
- ib_dilateSelection.m
- ib_doImageFiltering.m
- ib_erodeSelection.m
- ib_fillMembranes.m
- ib_imageMorphOpsGui.fig
- ib_imageMorphOpsGui.m
- ib_linearContrast.m
- ib_MorphOpsGui.fig
- ib_MorphOpsGui.m
- ib_removeBackground.m
- ib_smoothImage.m
- ib_watershedGui.fig
- ib_watershedGui.m
- ManGridBW.fig
- ManGridBW.m
- - bfCheckJavaMemory.m
  - bfCheckJavaPath.m
  - bfGetFileExtensions.m
  - bfGetPlane.m
  - bfGetReader.m
  - bfInitLogging.m
  - bfopen.m
  - bfopen3.m
  - bfOpen3DVolume.m
  - bfsave.m
  - bfUpgradeCheck.m
  - bioformats_package.jar
  - createMinimalOMEXMLMetadata.m
  - selectLociSeries.fig
  - selectLociSeries.m
  - wavelength2rgb.m
- - .gitignore
  - copyfig.m
  - crop_borders.m
  - export_fig.m
  - im2gif.m
  - ImageSelection.class
  - ImageSelection.java
  - isolate_axes.m
  - LICENSE
  - print2array.m
  - README.md
  - using_hg2.m
- - fijitest.m
  - ib_exportToFiji.m
  - ib_fijiSelectDataset.fig
  - ib_fijiSelectDataset.m
  - ib_importFromFiji.m
  - ib_renderModelFiji.m
  - ib_renderVolumeWithFiji.m
  - ib_runFijiMacro.m
  - ib_startMiji.m
  - ib_stopMiji.m
  - license.txt
  - Miji_deploy.m
  - Miji_wrapper.m
- - getXMLheader.asv
  - getXMLheader.m
  - image2hdf5.m
  - loadBigDataViewerFormat.m
  - mib_saveHDF5Dlg.fig
  - mib_saveHDF5Dlg.m
  - p_json.m
  - p_json_license.txt
  - readBigDataViewerFormat.m
  - saveBigDataViewerFormat.m
  - saveXMLheader.m
  - selectHDFSeries.fig
  - selectHDFSeries.m
  - struct2xml.m
  - struct2xml_license.txt
  - xml2struct.m
  - xml2struct_license.txt
- - ib_getImarisDataset.m
  - ib_getImarisDataset_standard_connection.m
  - ib_renderModelImaris.m
  - ib_setImarisDataset.m
  - IceImarisConnector_AUTHOR
  - IceImarisConnector_License_gpl-2.0.txt
  - IceImarisConnector_README.md
  - IceImarisConnector_README.txt
  - IceImarisConnector_VERSION
  - imaris_send_data_test.m
  - SurfacesFromSegmentationImage.m
- - Makefile
- - air.dll
  - biff.dll
  - bitmap2nrrd.m
  - compilethis.m
  - get_nrrd_metadata.m
  - ib_image2nrrd.m
  - nrrd.dll
  - nrrdLoadWithMetadata.c
  - nrrdLoadWithMetadata.m
  - nrrdLoadWithMetadata.mexglx
  - nrrdLoadWithMetadata.mexw32
  - nrrdLoadWithMetadata.mexw64
  - nrrdSaveWithMetadata.c
  - nrrdSaveWithMetadata.m
  - nrrdSaveWithMetadata.mexglx
  - nrrdSaveWithMetadata.mexw32
  - nrrdSaveWithMetadata.mexw64
  - teem.dll
  - vtkpng.dll
- - ib_importOmero.fig
  - ib_importOmero.m
  - ib_omeroLoginDlg.fig
  - ib_omeroLoginDlg.m
  - loadOmero_deploy.m
  - loadOmero_wrapper.m
- amiraLabels2bitmap.m
- amiraMesh2bitmap.m
- bitmap2amiraLabels.m
- bitmap2amiraMesh.m
- exportModelToImodModel.m
- getAmiraMeshHeader.m
- getImageMetadata.m
- getMRCfile.m
- getMRCheader.m
- ib_amiraImportGui.fig
- ib_amiraImportGui.m
- ib_getImages.m
- ib_image2jpg.m
- ib_image2mrc.m
- ib_image2png.m
- ib_image2tiff.m
- ib_imwrite.m
- ib_loadImages.m
- ib_saveVideoGui.fig
- ib_saveVideoGui.m
- ib_snapshotGui.fig
- ib_snapshotGui.m
- license_stlwrite.txt
- mib_chopDatasetGui.fig
- mib_chopDatasetGui.m
- mib_rechopDatasetGui.fig
- mib_rechopDatasetGui.m
- parseStructToTree.m
- stlwrite.m
- - ImageSelection.class
  - ImageSelection.java
  - imclipboard.m
  - license.txt
- bwdistsc.m
- bwdistsc1.m
- bwdistsc_license.txt
- chars.bmp
- correlationAnalysis_script.m
- DejaVuSansMono.png
- DejaVuSansMono.psd
- extrema.m
- extrema2.m
- findjobj.m
- findjobj_license.txt
- findjobj_old.m
- imRAG.m
- imRAG_license.txt
- imRichRAG.m
- my_ginput.m
- numbers.png
- numbers2.png
- removeDotsFromFilePath.m
- rendertext.m
- rendertext_license.txt
- view3d.m
- view3d_license.txt
- xlswrite2.m
- xlswrite2_license.txt
- about.png
- align.png
- bothat.png
- boundingbox.png
- buffer.png
- changemode.png
- chop.png
- classhelp.png
- clear.png
- colorchannels.png
- contrast.png
- copylayers.png
- copyright.png
- crop.png
- curvemeasure.png
- DejaVuSansMono.png
- edit-redo-2.png
- expand.png
- exportmatlab.png
- exportmatlab2.png
- fill.png
- filter.png
- help.png
- histogram.png
- im_browser_splash_short.jpg
- image_bicubic.res
- image_nearest.res
- imbothat.jpg
- imclearborder.jpg
- imclose.jpg
- imdilate.jpg
- imerode.jpg
- imfill.jpg
- imhmax.jpg
- imhmin.jpg
- imopen.jpg
- importmatlab.png
- importmatlab2.png
- imtophat.jpg
- intensity.png
- interpolation.png
- invert.png
- line_interpolation.res
- linemeasure.png
- load.png
- makevideo.png
- matlab16.png
- mib_about.jpg
- mib_quest.gif
- mib_update_wide.gif
- morph.png
- new.png
- notes.png
- numbers.png
- omero.png
- parameters.png
- plugins.png
- preferences.png
- randomforest.png
- render.png
- replacecolor.png
- resample.png
- save.png
- saveas.png
- scalebar.png
- shape_interpolation.png
- shape_interpolation.res
- slice.png
- smooth.png
- snapshot.png
- splash
- statistics.png
- stereology.png
- tophat.png
- transform.png
- update.png
- watershed.png
- - developers.c
  - Doxyfile.template
  - latexextras.template
  - mtocpp.conf
- - _3x.cfs
  - deletable
  - segments
- - helptoc.xml
  - im_browser_ack.html
  - im_browser_features.html
  - im_browser_getting_started.html
  - im_browser_installation.html
  - im_browser_license.html
  - im_browser_product_page.html
  - im_browser_release_notes.html
  - im_browser_system_requirements.html
  - im_browser_troubleshooting.html
  - im_browser_tutorials.html
  - im_browser_user_guide.html
  - ug_gui_data_layers.html
  - ug_gui_menu.html
  - ug_gui_menu_dataset.html
  - ug_gui_menu_dataset_alignment.html
  - ug_gui_menu_file.html
  - ug_gui_menu_file_chop.html
  - ug_gui_menu_file_makesnapshot.html
  - ug_gui_menu_file_makevideo.html
  - ug_gui_menu_file_preferences.html
  - ug_gui_menu_help.html
  - ug_gui_menu_image.html
  - ug_gui_menu_mask.html
  - ug_gui_menu_mask_statistics.html
  - ug_gui_menu_mask_statistics_eq91082.png
  - ug_gui_menu_models.html
  - ug_gui_menu_plugins.html
  - ug_gui_menu_selection.html
  - ug_gui_menu_tools.html
  - ug_gui_menu_tools_measure.html
  - ug_gui_menu_tools_random_forest.html
  - ug_gui_menu_tools_random_forest_superpixels.html
  - ug_gui_menu_tools_watershed.html
  - ug_gui_panels.html
  - ug_gui_shortcuts.html
  - ug_gui_toolbar.html
  - ug_panel_adjustments.html
  - ug_panel_bg_removal.html
  - ug_panel_bw_filter_eq29442.png
  - ug_panel_bw_filter_eq31766.png
  - ug_panel_bw_filter_eq43331.png
  - ug_panel_bw_filter_eq63766.png
  - ug_panel_bw_filter_eq65489.png
  - ug_panel_bw_filter_eq74220.png
  - ug_panel_bw_filter_eq89230.png
  - ug_panel_corr.html
  - ug_panel_dir.html
  - ug_panel_fiji_connect.html
  - ug_panel_filters_coherence.html
  - ug_panel_im_view.html
  - ug_panel_image_filters.html
  - ug_panel_mask_generators.html
  - ug_panel_path.html
  - ug_panel_roi.html
  - ug_panel_segm.html
  - ug_panel_segm_analysis_eq05913.png
  - ug_panel_segm_analysis_eq18525.png
  - ug_panel_segm_analysis_eq53775.png
  - ug_panel_segm_analysis_eq74601.png
  - ug_panel_segm_analysis_eq91082.png
  - ug_panel_segm_eq05913.png
  - ug_panel_segm_tools.html
  - ug_panel_selection.html
  - ug_panel_view_settings.html
- im_browser_ack.m
- im_browser_features.m
- im_browser_getting_started.m
- im_browser_installation.m
- im_browser_license.m
- im_browser_product_page.m
- im_browser_release_notes.m
- im_browser_splash_sm.jpg
- im_browser_system_requirements.m
- im_browser_troubleshooting.m
- im_browser_tutorials.m
- im_browser_user_guide.m
- info.xml
- MatlabDocMaker.m
- mtoc_readme.txt
- publish_html_im_browser.m
- style.css
- ug_gui_data_layers.m
- ug_gui_menu.m
- ug_gui_menu_dataset.m
- ug_gui_menu_dataset_alignment.m
- ug_gui_menu_file.m
- ug_gui_menu_file_chop.m
- ug_gui_menu_file_makesnapshot.m
- ug_gui_menu_file_makevideo.m
- ug_gui_menu_file_preferences.m
- ug_gui_menu_help.m
- ug_gui_menu_image.m
- ug_gui_menu_mask.m
- ug_gui_menu_mask_statistics.m
- ug_gui_menu_models.m
- ug_gui_menu_plugins.m
- ug_gui_menu_selection.m
- ug_gui_menu_tools.m
- ug_gui_menu_tools_measure.m
- ug_gui_menu_tools_random_forest.m
- ug_gui_menu_tools_random_forest_superpixels.m
- ug_gui_menu_tools_watershed.m
- ug_gui_panels.m
- ug_gui_shortcuts.m
- ug_gui_toolbar.m
- ug_panel_adjustments.m
- ug_panel_bg_removal.m
- ug_panel_corr.m
- ug_panel_dir.m
- ug_panel_fiji_connect.m
- ug_panel_filters_coherence.m
- ug_panel_im_view.m
- ug_panel_image_filters.m
- ug_panel_mask_generators.m
- ug_panel_path.m
- ug_panel_roi.m
- ug_panel_segm.m
- ug_panel_segm_tools.m
- ug_panel_selection.m
- ug_panel_view_settings.m
- - mib_calcShifts.m
  - mib_crossShiftStack.m
  - mib_crossShiftStacks.m
  - mib_DriftAlignDlg.fig
  - mib_DriftAlignDlg.m
  - windv.m
- - cropObjectsDlg.fig
  - cropObjectsDlg.m
  - ib_calcCurveLength.m
  - MaskStatsDlg.fig
  - MaskStatsDlg.m
  - mib_MaskStatsProps.fig
  - mib_MaskStatsProps.m
  - regionprops3.m
  - regionprops_license.txt
- - license.txt
  - regiongrowing.m
  - RegionGrowing_mex.cpp
  - RegionGrowing_mex.mexmaci64
  - RegionGrowing_mex.mexw64
- calc_correlation.m
- generate_grid_block_size.m
- ib_addText2Img.m
- ib_calcCorrelation.m
- ib_calculatePixSizes.m
- ib_calculateResolution.m
- ib_connect_points.m
- ib_connectPoints.m
- ib_flipDataset.m
- ib_interpolateLines.m
- ib_interpolateShapes.m
- ib_invertImage.m
- ib_maskGenerator.m
- ib_renderModel.m
- ib_rotateDataset.m
- ib_segmentation_3dBall.m
- ib_segmentation_Annotation.m
- ib_segmentation_Brush.m
- ib_segmentation_Lasso.m
- ib_segmentation_MagicWand.m
- ib_segmentation_MembraneClickTraker.m
- ib_segmentation_ObjectPicker.m
- ib_segmentation_RegionGrowing.m
- ib_segmentation_SmartWatershed.m
- ib_segmentation_Spot.m
- ib_segmentBlackWhiteThreshold.m
- ib_sizeExclusionFilter.m
- ib_transposeDataset.m
- ib_updatePixSizeAndResolution.m
- mark2selection.m
- mib_compile_c_files.m
- mib_resize3d.m
- mib_stereologyGui.fig
- mib_stereologyGui.m
.gitattributes
.gitignore
im_browser.fig
im_browser.m
im_browser_deploy.m
im_browser_getDefaultParameters.m
LICENSE
license.txt
MIB.prj
MIB_Mac.prj
README.md

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