Images give everyone a chance to understand the problem.Notes on Quality Questions & Productive Participation Here is a great macro I tried that mostly does what I'm hoping to do, but didn't work for multiple bands in one lane Īny help would be greatly appreciated, thank you! I need to do this with hundreds more samples and blots, so would like to automate this process as much as possible to get the Area and Percent of the three bands in every lane and ideally output the results to a csv. I have been using a traditional lane method of selecting each lane (Analyze > Gels > Select First/Next lane), plotting the lanes (Analyze > Gels > Plot Lanes), drawing a line to enclose the peaks, selecting the peaks, and getting the Area and Percent of each band ( Analyze > Gels > Label Peaks), which I normally copy/paste into excel. I am trying to automatically quantify the bands in a Western blot, which has three bands per lane (my protein of interest has three different forms that correspond to each band). Hello, this is my first time asking a question so I hope it's the right place! 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. ImageJ is a freely available, open source image processing and analysis program using Java, on which FIJI is based.