xsScores: Alternative cross-study scores of differential expression
In XDE: XDE: a Bayesian hierarchical model for cross-study analysis of differential gene expression

Description Usage Arguments Value Author(s) References See Also Examples

Alternative cross-study scores of differential expression

1	xsScores(statistic, N)

`statistic`	a matrix of study-specific estimates of effect size. Rows are genes and columns are studies.
`N`	numerical vector: the number of samples in each study (the length should be the number of columns in `statistic`)

A matrix of cross-study scores for differential expression ("diffExpressed"), concordant differential expression, and discordant differential expression.

R. Scharpf

J.K. Choi, U. Yu, S. Kim, and O.J. Yoo (2003), Combining multiple microarray studies and modeling interstudy variation, Bioinformatics, 19(1) I84-I90.

E. Garrett-Mayer, G. Parmigiani, X. Zhong, L. Cope, and E. Gabrielson (2007), Cross-study validation and combined analysis of gene expression microarray data, Biostatistics, September

R. Scharpf et al., A Bayesian Model for Cross-Study Differential Gene Expression, Technical Report 158, Johns Hopkins University, Department of Biostatistics, 2007

the GeneMeta package, ssStatistic

1
2
3

  data(expressionSetList)
  t <- ssStatistic(statistic="t", phenotypeLabel="adenoVsquamous", esetList=expressionSetList)
  tScores <- xsScores(t, N=nSamples(expressionSetList))