Supplementary Material

Peng S, Alekseyenko AA, Larschan E, Kuroda MI, Park PJ. BMC Bioinformatics, 2007.

To download the file, click on the right mouse button and choose 'save link as...'

Here, we provide the R code (28K) and RData (5.25MB) to generate the key figures in the paper

All work was done in R; RData is the workspace that can be loaded into R directly. The code has not been fully annotated, but a proficient R programmer should be able to understand it easily.

NimbleGen Data

The raw data are available in GEO (Series GSE8575)

To facilitate the data processing, we are also providing the "MA" data here (26Mb). M = log(R/G), and A = log(R*G)/2, where R and G are the intensities of the two-channels.

File description for MA data:

Probe Design file (63MB)