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CellProfiler & Ilastik: Superpowered Segmentation

Kyle Karhohs Joining forces CellProfiler is capable of accurate and reliable segmentation of cells by utilizing a broad collection of classical image processing methods. Peruse the documentation on the IdentifyPrimaryObjects module, for example, to get a sense of these, e.g., thresholding...

Help! Why does CellProfiler say it can’t find any valid image sets?

Beth Cimini Defining the input to CellProfiler can be the hardest part of getting your pipeline set up and your analysis underway. Incoming images are configured in the first 4 modules of CellProfiler – Images, Metadata, NamesAndTypes, and Groups – which offer lots of flexibility. But it’s sometimes...

Mo Data, Mo Problems: How to share big data with ease

Kyle Karhohs # Sharing Image Data At the Imaging Platform we frequently need to send and receive images between collaborators or forum users. Working with images can become challenging simply due to their file size. Memory and disk limitations are often irritants when analyzing images, but in some...