Original data of the manuscript entitled "JIPipe: Visual batch processing for ImageJ"

This dataset contains all original data used in the manuscript entitled "JIPipe: Visual batch processing for ImageJ" by Gerst and Cseresnyés <em>et al</em>. <br> Please visit _{https://www.jipipe.org} for tutorials, documentation, and downloads. Contained data <br> Following *.zip files contain an example pipeline, including data and generated outputs. Confrontation Assay.zip (_{Original publication}) Droplets.zip (_{Original publication)} Kidney.zip (_{Original publication}) Liver.zip (_{Original publication}) Nematodes.zip (_{Original publication}) <strong>Info: We released updated versions of these files. Please prefer these protocols/data</strong> All *.zip files share the same basic structure: <br> ProjectAndCache contains the results ProtocolAndData contains the project with the original data compartments-*.png is a screenshot of the whole pipeline All *.zip files are also provided as copy without the results (smaller file size) Opening and running a project Info: Sufficient computer memory is required to run certain projects. Info: "Confrontation Assay" and "Droplets" contain alternative solutions based on deep learning. You must install Cellpose via JIPipe (as prompted) to run them. <br> Open JIPipe (via <em>ImageJ &gt; Plugins &gt; JIPipe &gt; JIPipe GUI</em>) Click <em>Project &gt; Open</em> and select the *.jip project file in ProtocolAndData Either click "Run" (top right) or click the green button inside the node of interest to run the whole or a part of the pipeline Opening a result Open JIPipe (via <em>ImageJ &gt; Plugins &gt; JIPipe &gt; JIPipe GUI</em>) Click <em>Project &gt; Open analysis output</em> and select the ProjectAndCache directory Click "<em>Load in new tab</em>"