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Merge branch 'BMCV:master' into binary2label
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@kostrykin
kostrykin authored Nov 13, 2023
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## List of Tools on Galaxy Europe

- [Extract 2D features](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/2d_feature_extraction/ip_2d_feature_extraction)
- [Apply anisotropic diffusion](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/anisotropic_diffusion/ip_anisotropic_diffusion)
- [Perform linking in time series (nearest neighbors)](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/points_association_nn/ip_points_association_nn)
- [Threshold image](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/2d_auto_threshold/ip_threshold)
- [Compute image features](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/mahotas_features/ip_mahotas_features)
- [Compute image segmentation and object detection performance measures](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/segmetrics/ip_segmetrics)
- [Concatenate images or channels](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/concat_channels/ip_concat_channels)
- [Convert binary image to label map](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/binary2labelimage/ip_binary_to_labelimage)
- [Convert binary image to points (center of masses)](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/binaryimage2points/ip_binaryimage_to_points)
- [Perform color decomposition](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/color_deconvolution/ip_color_deconvolution)
- [Concatenate images or channels](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/concat_channels/ip_concat_channels)
- [Convert image format](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/bfconvert/ip_convertimage)
- [Convert binary image to points (point coordinates)](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/coordinates_of_roi/ip_coordinates_of_roi)
- [Convert image format](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/bfconvert/ip_convertimage)
- [Convert label map to points (center of masses)](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/labelimage2points/ip_labelimage_to_points)
- [Convert point coordinates to binary image](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/points2binaryimage/ip_points_to_binaryimage)
- [Convert point coordinates to label map](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/points2labelimage/ip_points_to_label)
- [Count objects in label map](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/count_objects/ip_count_objects)
- [Perform curve fitting](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/curve_fitting/ip_curve_fitting)
- [Visualize detections](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/detection_viz/ip_detection_viz)
- [Evaluate segmentation](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/visceral_evaluatesegmentation/ip_visceral_evaluatesegmentation)
- [Extract 2D features](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/2d_feature_extraction/ip_2d_feature_extraction)
- [Extract top view](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/wsi_extract_top_view/ip_wsi_extract_top_view)
- [Filter 2D image](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/2d_simple_filter/ip_filter_standard)
- [Filter label map by rules](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/2d_filter_segmentation_by_features/ip_2d_filter_segmentation_by_features)
- [Perform histogram equalization](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/2d_histogram_equalization/ip_histogram_equalization)
- [Show image info](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/image_info/ip_imageinfo)
- [Merge neighbors in label map](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/mergeneighboursinlabelimage/ip_merge_neighbours_in_label)
- [Overlay images](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/overlay_images/ip_overlay_images)
- [Perform 2D spot detection](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/spot_detection_2d/ip_spot_detection_2d)
- [Perform affine image registration (intensity-based)](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/image_registration_affine/ip_image_registration)
- [Convert label map to points (center of masses)](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/labelimage2points/ip_labelimage_to_points)
- [Perform affine image registration (landmark-based)](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/landmark_registration/ip_landmark_registration)
- [Perform color decomposition](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/color_deconvolution/ip_color_deconvolution)
- [Perform curve fitting](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/curve_fitting/ip_curve_fitting)
- [Perform histogram equalization](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/2d_histogram_equalization/ip_histogram_equalization)
- [Perform linking in time series (nearest neighbors)](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/points_association_nn/ip_points_association_nn)
- [Perform local thresholding](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/2d_local_threshold/ip_localthreshold)
- [Compute image features](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/mahotas_features/ip_mahotas_features)
- [Merge neighbors in label map](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/mergeneighboursinlabelimage/ip_merge_neighbours_in_label)
- [Overlay images](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/overlay_images/ip_overlay_images)
- [Permutate image axes](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/permutate_axis/ip_permutate_axis)
- [Convert point coordinates to binary image](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/points2binaryimage/ip_points_to_binaryimage)
- [Convert point coordinates to label map](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/points2labelimage/ip_points_to_label)
- [Perform segmentation using region-based fitting of overlapping ellipses](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/rfove/rfove/2023.11.12+galaxy0)
- [Perform segmentation using deformable shape models](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/superdsm/ip_superdsm)
- [Performs projective transformation with/without labels](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/projective_transformation_points/ip_projective_transformation_points)
- [Performs projective transformation](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/projective_transformation/ip_projective_transformation)
- [Permutate image axes](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/permutate_axis/ip_permutate_axis)
- [Scale image](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/scale_image/ip_scale_image)
- [Compute image segmentation and object detection performance measures](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/segmetrics/ip_segmetrics)
- [Show image info](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/image_info/ip_imageinfo)
- [Slice image](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/slice_image/ip_slice_image)
- [Split label map using morphological operators](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/split_labelmap/ip_split_labelmap)
- [Split binary image using watershed transformation](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/2d_split_binaryimage_by_watershed/ip_2d_split_binaryimage_by_watershed)
- [Perform 2D spot detection](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/spot_detection_2d/ip_spot_detection_2d)
- [Perform segmentation using deformable shape models](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/superdsm/ip_superdsm)
- [Split label map using morphological operators](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/split_labelmap/ip_split_labelmap)
- [Switch axis coordinates](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/imagecoordinates_flipaxis/imagecoordinates_flipaxis)
- [Evaluate segmentation](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/visceral_evaluatesegmentation/ip_visceral_evaluatesegmentation)
- [Threshold image](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/2d_auto_threshold/ip_threshold)
- [Visualize detections](https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/imgteam/detection_viz/ip_detection_viz)

## Acknowledgment

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