Avoid discipline-specific terminology ("jargon").Screenshots (to help identify issues with tools or features).Annotated Mock-ups (showing what features you are trying to measure).Reference Images (taken from published papers).Example Images (what you want to analyze).Images give everyone a chance to understand the problem.Notes on Quality Questions & Productive Participation ¹This subreddit is not affiliated with the creators of ImageJ or FIJI, but is simply a place to share ideas, papers, resources, and expertise - especially as relate to questions & answers posted here. ![]() Sign-up for one of the mailing lists: /Mailing_Lists It also hosts a forum for interacting with the developers.įIJI Is Just ImageJ - "a distribution of ImageJ (and ImageJ2) together with Java, Java3D and a lot of plugins organized into a coherent menu structure." is full of ImageJ development and analysis resources. ![]() Image analysis is interdisciplinary, so clearly explain field-specific terms or jargon. Clearly explain what you are trying to learn, not just the method used, to avoid the XY problem. Provide details: Be thorough in outlining the question(s) that you are trying to answer.People from the future may be stuck trying to answer the same question. Report spam or content that is hateful or off-topic.Upvote those who contribute to the discussion and provide freely of their time to assist you.Projects: Share a Link to your pet image analysis project.Research: Links to published (articles in scientific journals or in established repositories) that utilize ImageJ/FIJI for image analysis or are about image analysis.Discussions: Text posts, meant to ask about general issues relating to image analysis.Image analyst job posts are also welcome. Tips: Text or Link posts to share useful how-to tricks and discoveries on using ImageJ/FIJI.Questions which have been Solved will be marked as such. This could include algorithms, microscopy and scientific imaging, plug-ins, methods, and specific features of the software. Questions: Text posts asking about image analysis and ImageJ/FIJI.This is a an unofficial¹ forum to discuss image analysis, software features, to get help, to share ideas, and to share work done using ImageJ or FIJI. It's used worldwide, by a broad range of scientists. Excel templates are provided to facilitate the data analysis.ImageJ is a freely available, open source image processing and analysis program using Java, on which FIJI is based.Multiply the cell count reported by macros by F.Calculate normalization factor F = ( a× a)/( X× Y).Measure the sides of the square in this picture ( a by a pixels).Locate the picture resolution in picture file properties ( X pixels by Y pixels).Take a picture of the 1x1 mm square (with or w/o cell suspension).For Trypan Blue Exclusion macros, you'll have to normalize the data - effectively, account for how different the size of your picture is compared to the size of the 1x1 mm square on the hemocytometer panel.File “Cell counting results (Multicolor).txt” in the folder with the analyzed images.File “Cell counting results (PhaseContrast).txt” in the folder with the analyzed images.File “Cell counting results (Threshold-N).txt” in the folder with the analyzed images.Folder with the processed images in the folder with the analyzed images.Copy of the results in the system clipboard.File “Cell counting results (Maxima).txt” in the folder with the images analyzed.The plugin will prompt you for a folder containing the images to be analyzed.ijm files from the archive, and place them into the directory you created. DOWNLOAD and unpack the archive with the files:.Create a directory (for example, Cell Counting) in the ImageJ plugins directory:.CellCount-ProcessingTemplate-PhaseContrast.xltx.CellCount-BrightField-Threshold-100.ijm.CellCount-BrightField-Threshold-30.ijm. ![]()
0 Comments
Leave a Reply. |