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imagingtoolbox_tools.yml
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imagingtoolbox_tools.yml
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api_key: admin
galaxy_instance: http://localhost:8080
install_resolver_dependencies: True
install_tool_dependencies: False
tools:
- name: unzip
owner: imgteam
tool_panel_section_label: 'Collection Operations'
- name: 2d_auto_threshold
owner: imgteam
tool_panel_section_label: "Image Processing"
- name: 2d_local_threshold
owner: imgteam
tool_panel_section_label: "Image Processing"
- name: imagej2_adjust_threshold_binary
owner: iuc
tool_panel_section_label: "Image Processing"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_enhance_contrast
owner: iuc
tool_panel_section_label: "Image Processing"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_find_edges
owner: iuc
tool_panel_section_label: "Image Processing"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_find_maxima
owner: iuc
tool_panel_section_label: "Image Processing"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_make_binary
owner: iuc
tool_panel_section_label: "Image Processing"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: 2d_filter_segmentation_by_features
owner: imgteam
tool_panel_section_label: "Image Processing"
- name: imagej2_math
owner: iuc
tool_panel_section_label: "Image Processing"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_noise
owner: iuc
tool_panel_section_label: "Image Processing"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_shadows
owner: iuc
tool_panel_section_label: "Image Processing"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_sharpen
owner: iuc
tool_panel_section_label: "Image Processing"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_skeletonize3d
owner: iuc
tool_panel_section_label: "Image Processing"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_smooth
owner: iuc
tool_panel_section_label: "Image Processing"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: 2d_histogram_equalization
owner: imgteam
tool_panel_section_label: "Image Processing"
- name: 2d_simple_filter
owner: imgteam
tool_panel_section_label: "Image Processing"
- name: imagej2_watershed_binary
owner: iuc
tool_panel_section_label: "Image Processing"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: 2d_split_binaryimage_by_watershed
owner: imgteam
tool_panel_section_label: "Image Processing"
- name: color_deconvolution
owner: imgteam
tool_panel_section_label: "Image Processing"
- name: anisotropic_diffusion
owner: imgteam
tool_panel_section_label: "Image Processing"
- name: imagej2_bunwarpj_align
owner: iuc
tool_panel_section_label: "Image Registration"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_bunwarpj_adapt_transform
owner: iuc
tool_panel_section_label: "Image Registration"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_bunwarpj_align
owner: iuc
tool_panel_section_label: "Image Registration"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_bunwarpj_compare_elastic
owner: iuc
tool_panel_section_label: "Image Registration"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_bunwarpj_compare_elastic_raw
owner: iuc
tool_panel_section_label: "Image Registration"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_bunwarpj_compare_raw
owner: iuc
tool_panel_section_label: "Image Registration"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_bunwarpj_compose_elastic
owner: iuc
tool_panel_section_label: "Image Registration"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_bunwarpj_compose_raw
owner: iuc
tool_panel_section_label: "Image Registration"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_bunwarpj_compose_raw_elastic
owner: iuc
tool_panel_section_label: "Image Registration"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_bunwarpj_convert_to_raw
owner: iuc
tool_panel_section_label: "Image Registration"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_bunwarpj_elastic_transform
owner: iuc
tool_panel_section_label: "Image Registration"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_bunwarpj_raw_transform
owner: iuc
tool_panel_section_label: "Image Registration"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: landmark_registration
owner: imgteam
tool_panel_section_label: "Image Registration"
- name: projective_transformation
owner: imgteam
tool_panel_section_label: "Image Registration"
- name: projective_transformation_points
owner: imgteam
tool_panel_section_label: "Image Registration"
- name: imagej2_analyze_particles_binary
owner: iuc
tool_panel_section_label: "Image Analysis"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: imagej2_analyze_skeleton
owner: iuc
tool_panel_section_label: "Image Analysis"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: mahotas_features
owner: imgteam
tool_panel_section_label: "Image Analysis"
- name: visceral_evaluatesegmentation
owner: imgteam
tool_panel_section_label: "Image Analysis"
- name: count_objects
owner: imgteam
tool_panel_section_label: "Image Analysis"
- name: coordinates_of_roi
owner: imgteam
tool_panel_section_label: "Image Analysis"
- name: 2d_feature_extraction
owner: imgteam
tool_panel_section_label: "Image Analysis"
- name: detection_viz
owner: imgteam
tool_panel_section_label: "Visualization"
- name: overlay_moving_and_fixed_image
owner: imgteam
tool_panel_section_label: "Visualization"
- name: colocalization_viz
owner: imgteam
tool_panel_section_label: "Visualization"
- name: wsi_extract_top_view
owner: imgteam
tool_panel_section_label: "Visualization"
- name: overlay_segmentation_mask
owner: imgteam
tool_panel_section_label: "Visualization"
- name: imagej2_create_image
owner: iuc
tool_panel_section_label: "Image Utils"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: image_processing
owner: bgruening
tool_panel_section_label: "Image Utils"
tool_shed_url: https://testtoolshed.g2.bx.psu.edu/
- name: bfconvert
owner: imgteam
tool_panel_section_label: "Image Utils"
- name: binaryimage2points
owner: imgteam
tool_panel_section_label: "Image Utils"
- name: binary2labelimage
owner: imgteam
tool_panel_section_label: "Image Utils"
- name: labelimage2points
owner: imgteam
tool_panel_section_label: "Image Utils"
- name: points2labelimage
owner: imgteam
tool_panel_section_label: "Image Utils"
- name: points2binaryimage
owner: imgteam
tool_panel_section_label: "Image Utils"
- name: mergeneighboursinlabelimage
owner: imgteam
tool_panel_section_label: "Image Utils"
- name: scale_image
owner: imgteam
tool_panel_section_label: "Image Utils"
- name: concat_channels
owner: imgteam
tool_panel_section_label: "Image Utils"
- name: imagecoordinates_flipaxis
owner: imgteam
tool_panel_section_label: "Image Utils"
- name: permutate_axis
owner: imgteam
tool_panel_section_label: "Image Utils"
- name: split_labelmap
owner: imgteam
tool_panel_section_label: "Image Utils"
- name: slice_image
owner: imgteam
tool_panel_section_label: "Image Utils"
- name: split_labelmap
owner: imgteam
tool_panel_section_label: "Image Utils"
- name: image_info
owner: imgteam
tool_panel_section_label: "Image Utils"