If you used CellProfiler in a publication and would like to include your pipelines as online supplemental information, we are willing to host the pipelines here. It’s also nice if you cite the website ( and email us so that we are aware of your publication, but this is much less critical than citing the publications. Jones TR, Kang IH, Wheeler DB, Lindquist RA, Papallo A, Sabatini DM, Golland P, Carpenter AE (2008) CellProfiler Analyst: data exploration and analysis software for complex image-based screens.Jones TR, Carpenter AE, Lamprecht MR, Moffat J, Silver S, Grenier J, Root D, Golland P, Sabatini DM (2009) Scoring diverse cellular morphologies in image-based screens with iterative feedback and machine learning.CellProfiler Analyst 3.0: Accessible data exploration and machine learning for image analysis. Stirling DR, Carpenter AE, Cimini BA (2021).PMID: 22522656 PMCID: PMC3433711 ĬellProfiler for non-cell images: Lamprecht MR, Sabatini DM, Carpenter AE (2007) CellProfiler: free, versatile software for automated biological image analysis. Nature Methods 9(7):714-716/doi: 10.1038/nmeth.1984. Open-source software for exploring and analyzing large, high-dimensional image-derived data. This free version of LAS AF software has limited capabilities relative to the. Go to, open the softlib folder, open the LASAFLite folder, and download the software. An image analysis toolbox for high-throughput C. LAS AF Lite A free (Lite) version of Leica Application Suite Advanced Fluorescence software (LAS AF) can be downloaded from the Leica FTP site. PMID: 17076895 [ link to paper at Genome BiologyĬellProfiler for the Worm Toolbox: 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).
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