You can choose from any objects created by a previous object processing module, such as IdentifyPrimaryObjects, IdentifySecondaryObjects or IdentifyTertiaryObjects. Source publication +6 Fluorescence-Based Quantitative and Spatial. Select the objects that will be masked (that is, excluded in whole or in part based on the other settings in the module). Parameters used to detect spheroid outline for analysis shown in Figure 3. Groups and filters will only be available if defined in your properties file (section II). Specify whether Classifier should select these objects from the entire experiment, a single image or a group, and whether it should apply any filters. Plant Cell 9(5):689–701Įtchells JP, Mishra LS, Kumar M, Campbell L, Turner SR (2015) Wood formation in trees is increased by manipulating PXY-regulated cell division. CellProfiler 'IdentifyPrimaryObjects' module. Launch Classifier and enter the number of objects you want Classifier to fetch. Turner SR, Somerville CR (1997) Collapsed xylem phenotype of Arabidopsis identifies mutants deficient in cellulose deposition in the secondary cell wall. The IFC website page has further details on this workflow. Mussadiq Z, Laszlo B, Helyes L, Gyuricza C (2015) Evaluation and comparison of open source program solutions for automatic seed counting on digital images. CellProfiler can be used to analyze the resulting images from imaging flow cytometry, whether brightfield, darkfield, or fluorescence. Jiang Y, Qi X, Chrenek MA, Gardner C, Boatright JH, Grossniklaus HE, Nickerson JM (2013) Functional principal component analysis reveals discriminating categories of retinal pigment epithelial morphology in mice. Wählby C, Kamentsky L, Liu ZH, Riklin-Raviv T, Conery AL, O’Rourke EJ, Sokolnicki KL, Visvikis O, Ljosa V, Irazoqui JE, Golland P, Ruvkun G, Ausubel FM, Carpenter AE (2012) An image analysis toolbox for high-throughput C. CellProfiler: Overview Process large sets of images Identifies and measures objects Export data for further analysis Goal: Provide powerful image analysis methods with a user-friendly interface Philosophy: Measure everything, ask questions later. National Institutes of Health, Bethesda, MD, USA. Carpenter AE, Jones TR, Lamprecht MR, Clarke C, Kang IH, Friman O, Guertin DA, Chang JH, Lindquist RA, Moffat J, Golland P, Sabatini DM (2006) Cell Profiler: image analysis software for identifying and quantifying cell phenotypes.
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