Comparative Genomic Hybridization (Cgh) Algorithms Performance

Question

[Petr]

I am using snapCGH Bioconducor package to analyze aCGH data. Does anybody have or know about the comparative analysis evaluating the performance of the different algorithms which are implemented in the snapCGH package (GLAD, HMM, DNAcopy, TilingArray..)

Answer 1

[Chris Miller]

[?]Analysis of Array-CGH Data Using the R and Bioconductor Software Suite[?]

[?]They're compared a little bit in this paper too[?]

30 seconds of searching got me these. I bet a few minutes of searching on your part would find even more. Try search terms like: DNAcopy GLAD compare

Answer 2

[David Quigley]

Willenbrock & Fridlyand Bioinformatics 2005 http://bioinformatics.oxfordjournals.org/content/21/22/4084.full

A bit old, but this is a direct bake-off of aCGH, DLAD, and DNAcopy. Concludes that DNAcopy is the way to go. That's my own opinion as well, but I may be biased as I collaborate with the author.