User Tools

Site Tools


plugin:start

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

Both sides previous revision Previous revision
Last revision Both sides next revision
plugin:start [2019/02/01 05:05]
plugin:start [2019/04/12 11:13]
127.0.0.1 external edit
Line 1: Line 1:
 +====== Plugins ======
  
 +Descriptions and downloads for ImageJ plugins stored here. There are many more plugins in the ImageJ website.
 +
 +===== Acquisition =====
 +
 +  * [[plugin:​acquisition:​imagejvi:​start|ImageJVI]]
 + 
 +===== Aligning =====
 +
 +  * [[plugin:​aligning:​align_4:​start|Align_4]]
 +  * [[plugin:​aligning:​align_rgb_planes:​start|Align_RGB_planes]]
 +  * [[plugin:​aligning:​align_slice:​start|Align_Slice]]
 +  * [[plugin:​aligning:​bunwarpj:​consistent_and_elastic_2d_image_registration:​start|bUnwarpJ:​ consistent and elastic registration]]
 +  * [[plugin:​aligning:​image_stabilizer:​start|Image Stabilizer]]
 +
 +===== Analysis =====
 +
 +  * [[plugin:​analysis:​aatap:​start|]]
 +  * [[plugin:​analysis:​analyzeskeleton:​start|Analyze Skeleton (2D/3D)]]
 +  * [[plugin:​analysis:​autodetection_of_neuronal_labeling_in_histological_image_series:​start|Automatic detection of neuronal labeling in histological image series]]
 +  * [[plugin:​analysis:​asa:​start|Bitmap Sholl Analysis]]
 +  * [[plugin:​analysis:​geodesic_distances:​start|Chamfer Distances and Geodesic Diameters]]
 +  * [[plugin:​analysis:​clonaltools:​start|ClonalTools (analysis of mosaic images)]]
 +  * [[plugin:​analysis:​confined_displacement_algorithm_determines_true_and_random_colocalization_:​start|Confined Displacement Algorithm Determines True and Random Colocalization (CDA)]]
 +  * [[plugin:​analysis:​feature_finder:​start|Feature Finder (Template matching)]]
 +  * [[plugin:​analysis:​frap_normalization:​start|Frap_Norm (FRAP measurement and normalization)]]
 +  * [[plugin:​analysis:​frap_analysis:​start|FRAP Analysis (analysis of FRAP experiments)]]
 +  * [[plugin:​analysis:​fourier_shape_analysis:​start|Fourier Shape Analysis]]
 +  * [[plugin:​analysis:​colocalization_analysis_macro_for_red_and_green_puncta:​start|Green and Red Puncta Colocalization]]
 +  * [[plugin:​analysis:​heatmap_histogram:​start|HeatMap Histogram]]
 +  * [[plugin:​analysis:​ivim_and_adc_analysis_tool:​start|Intravoxel Incoherent Motion (IVIM) Analysis and ADC analysis]]
 +  * [[plugin:​analysis:​jacop_2.0:​just_another_colocalization_plugin:​start|JACoP (Just Another Co-localization Plugin)]]
 +  * [[plugin:​analysis:​droplet_counter:​start|Lipid Droplet (or any other spots) Counter]]
 +  * [[plugin:​analysis:​lemos_asymetry_analysis:​start|Lemos Asymmetry Analysis (asymmetry measurements from dental panoramic radiograph images)]]
 +  * [[plugin:​analysis:​poissonnmf:​start|PoissonNMF:​ Linear unmixing without reference spectra]]
 +  * [[plugin:​analysis:​shapelogic:​start|ShapeLogic categorizer:​ Machine learning or rule based]]
 +  * [[plugin:​analysis:​micropatterned_single_cell_sorting_mscs_:​start|MSCS (Micropatterned Single Cell Sorting)]]
 +  * [[plugin:​analysis:​3d_object_counter:​start|3D Object Counter]]
 +  * [[plugin:​stacks:​3d_roi_manager:​start|3D Roi Manager]]
 +  * [[plugin:​analysis:​3d_analysis:​start|3D Analysis]]
 +  * [[plugin:​analysis:​3d_mereotopology:​start|3D Mereotopology]]
 +  * [[plugin:​analysis:​spatial_statistics_2d_3d:​start|2D/​3D Spatial statistics]]
 +  * [[plugin:​analysis:​metroloj:​start|MetroloJ]]
 +  * [[plugin:​analysis:​openmims:​start|OpenMIMS (open, process and analyze images captured with NanoSIMS 50 & 50L secondary ion mass spectrometers)]]
 +  * [[plugin:​analysis:​radial_thickness_measure:​start|Radial thickness measure]]
 +  * [[plugin:​analysis:​SarConfoCal:​start|SarConfoCal (Simultaneous Fluorescence and Sarcomere Length Measurements from LSCM Images)]]
 +  * [[plugin:​analysis::​SarcOptiM:​start|SarcOptiM (High Frequency Online Sarcomere Length Measurement)]]
 +  * [[plugin:​analysis:​Time gated phasor:​start|Time gated phasor]]
 +  * [[plugin:​analysis:​three-way_pca:​start|Three-way PCA]]
 +  * [[plugin:​analysis::​ttorg_transverse_tubular_system_regularity_analysis_:​start|TTorg (Transverse tubular system regularity analysis)]]
 +  * [[plugin:​analysis:​wand_tracker:​start|Wand Tracker (track objects by selecting them with the magic wand)]]
 +  * [[plugin:​analysis:​microscope_image_correlation_spectroscopy:​start|]]
 +  * [[plugin:​analysis:​neurite-j:​start|Neurite-J,​ Sholl analysis for organotypic cultures]]
 +  * [[plugin:​analysis:​Find_min_max:​start]]
 +  * [[plugin:​analysis:​fleye:​start|FLEYE,​ ommatidia analysis]]
 +  * [[plugin:​3d:​tissue_organization_toolbox:​start|3D tissue organisation]]
 +===== Collections ====
 +
 +  * [[plugin:​collections:​mitobo_-_a_microscope_image_analysis_toolbox:​start|MiToBo - a microscope image analysis toolbox (basic image processing tools, active contours, cell/​nuclei/​neurite segmentation,​ scratch assay analysis, ...)]] ​
 +
 +===== Color =====
 +
 +  * [[plugin:​color:​Chart_White_Balance:​start|Chart White Balance]]
 +  * [[plugin:​color:​colour_deconvolution:​start|Colour Deconvolution]]
 +  * [[plugin:​color:​Color_Pixel_Counter:​start|Color Pixel Counter]] ​
 +  * [[plugin:​color:​lut_panel:​start|Lut Panel]]
 +  * [[plugin:​color:​threshold_colour:​start|Threshold Colour]]
 +  * [[plugin:​color:​colour_deconvolution:​optimizing_selection_of_unitary_optical_density_vectors:​start|Color Deconvolution:​ Optimizing handling of 3D unitary optical density vectors with polar coordinates]]
 +  * [[plugin:​color:​channel_merger_:​start]]  ​
 +  * [[plugin:​color:​conversions_between_rgb_color_space_and_lab_color_space:​start]]
 +  * [[plugin:​color:​set_min_and_max_values_for_lut:​start]]
 +===== Filters =====
 +
 +  * [[plugin:​filter:​digital_darkfield_decomposition:​start|Digital Darkfield Decomposition]]
 +  * [[plugin:​filter:​edge_detection:​start|Edge Detection]]
 +  * [[plugin:​filter:​expression:​start|Expression]]
 +  * [[plugin:​filter:​fast_filters:​start|Fast Filters]]
 +  * [[plugin:​filter:​fit_polynomial:​start|Fit_Polynomial]]
 +  * [[plugin:​filter:​highpass_filter:​start|Highpass filter]]
 +  * [[plugin:​filter:​hill_shade:​start|Hill Shade]]
 +  * [[plugin:​filter:​mri_processor:​start]]
 +  * [[plugin:​filter:​nonuniform_background_removal:​start|Nonuniform Background Removal]]
 +  * [[plugin:​filter:​periodic_boundary_blur:​start|Periodic_Boundary_Blur]]
 +  * [[plugin:​filter:​surface_blur:​start|Surface Blur]]
 +  * [[plugin:​filter:​thresholded_blur:​start|Thresholded Blur]]
 +  * [[plugin:​filter:​3d_filters:​start|]]
 +  * [[plugin:​filter:​3d_filters_with_jni:​start|]]
 +  * [[plugin:​filter:​differential_contrast_enhancement:​start | Differential contrast enhancement]]
 +  * [[plugin:​filter:​line_lab_selective_median_filtering:​start]]
 +  * [[plugin:​filter:​lab_nonlocal_mean_with_same_pixel_luminance_neighborhood:​start]]
 +
 +===== Input / Output =====
 +
 +  * [[plugin:​inputoutput:​apng:​start|Animated PNG Writer]]
 +  * [[plugin:​inputoutput:​bio_formats:​start|Bio-Formats]]
 +  * [[plugin:​inputoutput:​jcbf:​start|CBF Reader]]
 +  * [[plugin:​inputoutput:​hpgl:​start|HPGL_Reader]]
 +  * [[plugin:​inputoutput:​lsm_reader:​start|LSM_Reader]]
 +  * [[plugin:​inputoutput:​lsmtoolbox:​start|LSMToolbox]]
 +  * [[plugin:​inputoutput:​nd_stacks_builder:​start|Metamorph nd & ROI files importer (nd stack builder)]]
 +  * [[plugin:​inputoutput:​okolab_data_import:​start|Okolab Data Import]]
 +  * [[plugin:​stacks:​perkin_elmer_reader:​start|Perkin Elmer Reader]]
 +  * [[plugin:​inputoutput:​pgm_16_bit_export:​start|PGM 16 bit exporter]]
 +  * [[plugin:​inputoutput:​sims_toolbox:​start|SIMS_Toolbox]]
 +  * [[plugin:​inputoutput:​tomoj:​start|TomoJ]]
 +  * [[plugin:​inputoutput:​the_tudor_dicom_toolkit:​start|The Tudor DICOM Toolkit]]
 +  * [[plugin:​inputoutput:​picoquant_.pt3_image_reader:​start| Pt3Reader, a Picoquant .pt3 files importer]]
 +
 +
 +===== Morphology =====
 +
 +  * [[plugin:​morphology:​morphological_operators_for_imagej:​start|Morphological Operators for ImageJ]]
 +  * [[plugin:​morphology:​graymorphology:​start|Non binary Morphological Operators for ImageJ]]
 +  * [[plugin:​morphology:​fast_morphological_filters:​start|Fast Morphological Filters]]
 +  * [[plugin:​morphology:​mitochondrial_morphology_macro_plug-in:​start|Mitochondrial Morphology]]
 +  * [[plugin:​morphology:​skeletonize3d:​start| 2D/3D Skeletonization]]
 +  * [[plugin:​morphology:​3d_mathematical_morphology_:​start|]]
 +  * [[plugin:​morphology:​euclidean_minimum_spanning_tree:​start|]]
 +  * [[plugin:​morphology:​apoptosis_and_cell_count_macro:​start|Apoptosis Macro]]
 +
 +===== Segmentation =====
 +
 +  * [[plugin:​segmentation:​active_mask_segmentation_of_fluorescence_microscope_cell_images_:​start|Active Mask Segmentation (2D)]]
 +  * [[plugin:​segmentation:​active_contour:​start|Active contour (Snake)]]
 +  * [[plugin:​segmentation:​adjustable_watershed:​start|Adjustable Watershed]]
 +  * [[plugin:​segmentation:​hysteresis_thresholding:​start|Hysteresis thresholding]]
 +  * [[plugin:​segmentation:​livewire_plugin:​start|LiveWire Plugin]]
 +  * [[plugin:​segmentation:​morphological_segmentation:​start|Morphological Segmentation (2D/3D)]]
 +  * [[plugin:​segmentation:​simple_image_pixel_editor:​start|Simple Image Pixel Editor]]
 +  * [[plugin:​segmentation:​spectral_phasor:​start|Spectral Phasor]]
 +  * [[plugin:​segmentation:​thresholding_by_connection:​start|Thresholding by connection]]
 +  * [[plugin:​segmentation:​threshold_colour:​start|Threshold_Colour]]
 +  * [[plugin:​segmentation:​versatile_wand:​start|Versatile Wand]]
 +  * [[plugin:​segmentation:​yawi_2d:​start|Yawi 2D (Wand)]]
 +  * [[plugin:​segmentation:​3d_spots_segmentation:​start|3D Segmentation]]
 +  * [[plugin:​segmentation:​chow_and_kaneko_binarization:​start|Chow and Kaneko binarization]]
 +  * [[plugin:​segmentation:​jSLIC:​start|jSLIC superpixels]]
 +===== Stacks =====
 +
 +  * [[plugin:​stacks:​attenuation_correction:​start|Attenuation Correction]]
 +  * [[plugin:​stacks:​frame_projector:​start|Frame Projector]]
 +  * [[plugin:​stacks:​heatmap_from_stack:​start|HeatMap From Stack]]
 +  * [[plugin:​stacks:​hypervolume_browser:​start|HyperVolume_Browser]]
 +  * [[plugin:​stacks:​image5d:​start|Image5D]]
 +  * [[plugin:​aligning:​image_stabilizer:​start|Image Stabilizer]]
 +  * [[plugin:​stacks:​image_stack_merger_plus_background_remover_:​start|Image Stack Merger Plus]]
 +  * [[plugin:​stacks:​microscobioj:​start|MicroSCoBioJ]]
 +  * [[plugin:​stacks:​multi_image_stack_operator:​start|]]
 +  * [[plugin:​stacks:​nonuniform_background_removal:​start|Nonuniform Background Removal]]
 +  * [[plugin:​stacks:​normal_map_computing_using_ptm:​start|]]
 +  * [[plugin:​stacks:​nuclear_analysis_plugin:​start|NucleusJ]]
 +  * [[plugin:​stacks:​perkin_elmer_reader:​start|Perkin Elmer Reader]]
 +  * [[plugin:​stacks:​plot_stack_points:​start|]]
 +  * [[plugin:​stack:​stack_fitter:​start]]
 +  * [[plugin:​filter:​3d_filters:​start|]]
 +  * [[plugin:​stacks:​3d_tools:​start|3D Tools]]
 +  * [[plugin:​stacks:​3d_ij_suite:​start|]]
 +
 +===== 3D Modelling =====
 +
 +  * [[plugin:​3d:​3d_mandelbrot_fractals:​start|Fractal3D]]
 +  * [[plugin:​3d:​trakem2:​start|TrakEM2]]
 +  * [[plugin:​3d:​phantomaj:​start|PhantomaJ]]
 +===== Utilities =====
 +
 +  * [[plugin:​utilities:​action_bar:​start|Action Bar]]
 +  * [[plugin:​utilities:​alpha_channel:​start|Alpha Channel]]
 +  * [[plugin:​utilities:​annotation_roi_3d:​start|Annotation ROI 3D]]
 +  * [[plugin:​utilities:​bezier_curve_roi:​start|Bezier Curve ROI]]
 +  * [[plugin:​utilities:​cairm_image_splitter:​start|Cairn Image Splitter]]
 +  * [[plugin:​utilities:​contmensili:​start|ContMensili (update 05 mar 2011)]]  ​
 +  * [[plugin:​utilities:​droplet:​start|Droplet:​ a Drag and Drop image processor]]
 +  * [[plugin:​utilities:​figurej:​start|FigureJ:​ easy article figures]]
 +  * [[plugin:​utilities:​ij_ed:​start|IJ Ed (jEdit for ImageJ)]]
 +  * [[plugin:​utilities:​imageflow:​start|Imageflow]]
 +  * [[plugin:​utilities:​ijupdate:​start|IJUpdate]]
 +  * [[plugin:​utilities:​ijproxy:​start|IJProxy]]
 +  * [[plugin:​utilities:​livemacro:​start|Live Macro (experiment with a webcam and macro language)]]
 +  * [[plugin:​inputoutput:​lsmtoolbox:​start|LSM Toolbox]]
 +  * [[plugin:​utilities:​midij_-_midi_plugin_for_imagej:​start|MidiJ - Midi Plugin for ImageJ]]
 +  * [[plugin:​utilities:​mri_cell_image_analyzer:​start|MRI Cell Image Analyzer]]
 +  * [[plugin:​utilities:​mvfg_-_multi-format_video_frame_grabber_imagej_plugin:​start|MVFG - Multi-format Video Frame Grabber]]
 +  * [[plugin:​utilities:​multi_undo:​start|Multi Undo]]
 +  * [[plugin:​utilities:​neuronpersistentj:​start|NeuronPersistentJ]]
 +  * [[plugin:​utilities:​pdf_macro_extension:​start|PDF macro extension]]
 +  * [[plugin:​utilities:​pixel_inspector:​start|Pixel_Inspector]]
 +  * [[plugin:​utilities:​python_dm3_reader:​start|Python DM3 Reader]]
 +  * [[plugin:​utilities:​quadratic_curve ROI:​start|Quadratic Curve ROI]]
 +  * [[plugin:​utilities:​save_all:​start|Save All]]
 +  * [[plugin:​utilities:​seam_carving:​start|Seam Carving]]
 +  * [[plugin:​utilities:​serial_macro_extensions:​start|Serial Macro extensions]]
 +  * [[plugin:​utilities:​synapsescountj:​start|SynapCountJ]]
 +  * [[plugin:​utilities:​tapas_:​integrated_framework_for_automated_processing_and_analysis:​start|TAPAS]]
 +  * [[plugin:​utilities:​wait_for_user:​start|Wait_For_User]]
plugin/start.txt ยท Last modified: 2019/05/03 10:46 by admin