ImageJ/Fiji - Segmentation Part 4: Clean Up

Video Highlights and Helpful Links The sample image, “C3-jw-30min 5_c5.tif”, used in this video can be found here (http://workshops.imagej.net/). Using a binary mask, you can carry out morphological operations to ‘clean up’ your objects, including Erode (https://imagej.nih.gov/ij/docs/guide/..., Dilate (https://imagej.nih.gov/ij/docs/guide/..., Open (https://imagej.nih.gov/ij/docs/guide/..., Close (https://imagej.nih.gov/ij/docs/guide/..., Skeletonize (https://imagej.nih.gov/ij/docs/guide/..., Outline (https://imagej.nih.gov/ij/docs/guide/..., Fill Holes (https://imagej.nih.gov/ij/docs/guide/..., and Watershed (https://imagej.nih.gov/ij/docs/guide/.... MorphoLibJ (https://imagej.net/plugins/morpholibj), is a great collection of tools for mathematical morphology operations, including Morphological Segmentation (https://imagej.net/plugins/morphologi...) and Distance Transform Watershed (https://imagej.net/plugins/distance-t.... You can enable that update site (https://imagej.net/update-sites/index...) to gain access to all those tools/plugins. **Note: The names ‘ImageJ’ and ‘Fiji’ are used interchangeably… we recommend new users download/install/use the Fiji distribution (https://imagej.net/software/fiji/index) of ImageJ, as Fiji Is Just ImageJ!