The package may be downloaded from the links below or from http://cran.r-project.org/web/packages/DIME/.
Software (For running on Linux; in a zipped, tar file; compiled with R 2.15)
Software (For running on Mac; in a gzip-compressed archive)
Software (For running on Windows; in a zipped)
Instructions for installing DIME.
Manual for running DIME.
Sample data Pol II Chip-seq data (R object)
This package is primarily authored by Cenny Taslim, with contributions from Dustin Potter, Abbas Khalili, and Shili Lin. Integrative Cancer Biology Program (ICBP) trainees Yue (Phoenix) Xu and Leslie Watkins also contributed to the testing of the software.
Khalili, A., Huang, T., and Lin, S. (2009). A robust unified approach to analyzing methylation and gene expression data. Computational Statistics and Data Analysis, 53(5), 1701-1710.
Taslim, C., Wu, J., Yan, P., Singer, G., Parvin, J., Huang, T., Lin, S., and Huang, K. (2009). Comparative study on chip-seq data: normalization and binding pattern characterization. Bioinformatics, 25(18), 2334-2340.
Dean, N. and Raftery, A. E. (2005). Normal uniform mixture differential gene expression detection for cDNA microarrays. BMC Bioinformatics, 6, 173.
please contact Cenny Taslim at Cenny.Taslim@osumc.edu or Shili Lin at email@example.com for questions.