The CellProfiler Software Project: Free and open-source!
CellProfiler cell image analysis software is designed for biologists without training in computer vision or programming to quantitatively measure phenotypes from thousands of images automatically. [article: cell images] [article: non-cell images] [download software]
CellProfiler Analyst data exploration software allows interactive exploration and analysis of multidimensional data, particularly data from high-throughput, image-based experiments. [data visualization article] CellProfiler Analyst also contains a supervised machine learning system which can be trained to recognize complicated and subtle phenotypes, enabling automatic scoring of millions of cells. [machine learning article] [download software]
The Broad Bioimage Benchmark Collection (BBBC) is a collection of freely available microscopy image sets for developing and testing image analysis algorithms.
CellProfiler News
Monday, December 7, 2009 — CellProfiler Analyst 2.0 Released
Our data exploration tool CellProfiler Analyst has been re-released and is available for download here. The software boasts our most current advances to our Classifier tool as well as tools for visualizing and plotting data from CellProfiler.
Tuesday, June 22, 2009 — CellProfiler Reader Node Released for HC/DC-KNIME
Recent work at ETH Zurich has produced a high-content screening node set for KNIME, an extendable, modular data exploration platform developed at University of Konstanz. The HC/DC (High Content Data Chain) functional node set for KNIME includes a CellProfiler Reader node which allows users of the tool to easily connect to CP data generated by the "Export to Excel" module.
Tuesday, June 9, 2009
An updated version of CellProfiler has been released!
It has some new features, and many bugfixes. Download it here.
We are also introducing new resources for CellProfiler/CellProfiler Analyst developers here, including mailing lists, access to our SVN repositories, information on the next stage of CellProfiler development (namely, porting our entire code base from Matlab to Python) and more.
Thursday, April 30, 2009
Bio-IT World magazine awarded CellProfiler a 2009 "Best Practices Award", in the category of IT and Informatics. These awards spotlight examples of the most outstanding innovations, technologies, and practices in the fields of biomedical research, drug development, and clinical research. Read more about these awards here, and an in-depth article about the development of CellProfiler here.
Thursday, December 11, 2008
Classifier 2.0 Beta has been released! This new multi-class classifier will eventually be paired up with visual analytics tools to replace our current version of CellProfiler Analyst. Download it here.