Open Access Highly Accessed Software

CellProfiler: image analysis software for identifying and quantifying cell phenotypes

Anne E Carpenter1, Thouis R Jones12, Michael R Lamprecht1, Colin Clarke12, In Han Kang2, Ola Friman3, David A Guertin1, Joo Han Chang1, Robert A Lindquist1, Jason Moffat1, Polina Golland2 and David M Sabatini14*

Author Affiliations

1 Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA

2 Computer Sciences and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, MA 02142, USA

3 Department of Radiology, Brigham and Women's Hospital, Boston, MA 02115, USA

4 Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02142, USA

For all author emails, please log on.

Genome Biology 2006, 7:R100  doi:10.1186/gb-2006-7-10-r100

Published: 31 October 2006

Additional files

Additional data file 1:

CellProfiler manual

Format: PDF Size: 819KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 2:

CellProfiler pipelines for experiments shown in this paper, listing the modules in the order used

Format: PDF Size: 63KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 3:

CellProfiler modules by category, with their descriptions

Format: PDF Size: 17KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 4:

Measurements made by CellProfiler modules

Format: PDF Size: 24KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 5:

Data and image tools in CellProfiler, with their descriptions

Format: PDF Size: 10KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 6:

Example from CellProfiler analysis of DNA content (cell cycle) in Drosophila Kc167 cells

Format: PDF Size: 582KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 7:

Histograms of shape and texture features for wild-type cells

Format: PDF Size: 573KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 8:

Measures for the cytoplasm-nucleus translocation assay (Figure 4) for which the Z' factor is above 0.5

Format: PDF Size: 9KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data