SUMMARY: The current methods available to detect chromosomal abnormalities from 
DNA microarray expression data are cumbersome and inflexible. CAFE has been 
developed to alleviate these issues. It is implemented as an R package that 
analyzes Affymetrix *.CEL files and comes with flexible plotting functions, 
easing visualization of chromosomal abnormalities.
AVAILABILITY AND IMPLEMENTATION: CAFE is available from 
https://bitbucket.org/cob87icW6z/cafe/ as both source and compiled packages for 
Linux and Windows. It is released under the GPL version 3 license. CAFE will 
also be freely available from Bioconductor.
CONTACT: sander.h.bollen@gmail.com or nancy.mah@mdc-berlin.de
SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics 
online.