Software

OpWise: Operons aid the identification of differentially expressed genes in bacterial microarray experiments

Morgan N Price^1,², Adam P Arkin^1,^2,^3,⁴ and Eric J Alm^1,²^*

¹ Lawrence Berkeley Lab, 1 Cyclotron Road, Mailstop 977-152, Berkeley CA 94720, USA

² Virtual Institute of Microbial Stress and Survival

³ Howard Hughes Medical Institute, Berkeley CA, USA

⁴ University of California at Berkeley, Department of Bioengineering, Berkeley CA, USA

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BMC Bioinformatics 2006, 7:19 doi:10.1186/1471-2105-7-19

Published: 13 January 2006

Additional File 1:

Distributions, in actual and simulated data, for observed means and squared total deviances

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Additional File 2:

Relationship between means and variances in the data and in simulations

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Additional File 3:

Single-gene significance and agreement with operons for additional simulations

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Additional File 4:

OpWise.zip (includes source code in R, HTML instructions, and the data sets analyzed in this paper)