December 2007

Introduction

There are many co-expression network programs available, but most are written in high-level programming languages and cannot handle realistically high-throughput datasets. PartCorrNet calculates a zero, first, and second order partial correlation network either by a defined cutoff value for edge weights (Pearson correlations) or by significance tests according to [1]. It was written in the C++ programming language with efficiency in mind for a large, genome-scale data set.

References

[1]de la Fuente, et al. Bioinformatics. Vol. 20, No. 18. Pp. 3565-3574, 2004.

[2] Cramer GR, Ergül A, Grimplet J, Tillett RL, Tattersall EA, Bohlman MC, Vincent D, Sonderegger J, Evans J, Osborne C, Quilici D, Schlauch KA, Schooley DA, Cushman JC. "Water and salinity stress in grapevines: early and late changes in transcript and metabolite profiles.“ Funct Integr Genomics. 2007 Apr;7(2):111-34. Epub 2006 Nov 29.