DTA (version 2.18.0)

DTA.normalize: cDTA normalization procedure.

Description

DTA.normalize can normalize expression values from a certain species to the median of values from a reference species.

Usage

DTA.normalize(mat,reliable = NULL,logscale = FALSE,protocol = FALSE,center = FALSE)

Arguments

mat

Expression matrix.

reliable

The rows to be used, i.e. identifiers of the reference species to normalize on.

logscale

Is the matrix in log-scale ?

protocol

Should a protocol be printed ?

center

Should the center be 0 (log-scale) or 1 (absolute scale). Otherwise the median of the medians is taken.

References

M. Sun, B. Schwalb, D. Schulz, N. Pirkl, L. Lariviere, K. Maier, A. Tresch, P. Cramer. Mutual feedback between mRNA synthesis and degradation buffers transcript levels in a eukaryote. Under review. B. Schwalb, B. Zacher, S. Duemcke, D. Martin, P. Cramer, A. Tresch. Measurement of genome-wide RNA synthesis and decay rates with Dynamic Transcriptome Analysis (DTA/cDTA). Bioinformatics.

Examples

### see vignette examples or reference:
### B. Schwalb, B. Zacher, S. Duemcke, D. Martin, P. Cramer, A. Tresch.
### Measurement of genome-wide RNA synthesis and decay rates with Dynamic Transcriptome Analysis (DTA/cDTA). Bioinformatics, in revision.