thanks all for citing our publication directly or indirectly related
to the aroma project framework.
Since I noticed that the original CRMA paper often get cited even when
the CRMA v2 method is used/meant, I would like to clarify to the list
that CRMA v2 is preferably referenced as:
H. Bengtsson, P. Wirapati & T.P. Speed, A single-array preprocessing
method for estimating full-resolution raw copy numbers from all
Affymetrix genotyping arrays including GenomeWideSNP 5 & 6,
Bioinformatics, 2009. [PMID: 19535535]
You can find all our references at
http://www.aroma-project.org/publications/ each with a small "Cite
this for:" note indicating for which method it should be cited. If
you are uncertain, just drop us an email and we'll clarify.
When reporting problems on aroma.affymetrix, make sure 1) to run the latest version of the package, 2) to report the output of sessionInfo() and traceback(), and 3) to post a complete code example.