vm.analysis.unpaired.step.1 {varmixt} | R Documentation

## First step of analysis in unpaired data case

### Description

First step of analysis in unpaired data case

### Usage

    vm.analysis.unpaired.step.1(geneId, cont, treat, gene.anot = NULL, badqual = NULL, qualtol = NULL, center = TRUE, loess.cor = FALSE, min.rep = 2)

### Arguments

`geneId` | a vector of the vector of gene names
`cont` | matrix of gene log-intensity in condition 1. The matrix has one gene per row and one replicate per column
`treat` | matrix of gene log-intensity in condition 1
`gene.anot` | data.frame with further gene anotations
`badqual` | integer matrix of number of bad quality observation per gene and replicate
`qualtol` | integer. Genes with more than qualtol bad quality observations are removed from the analysis. This argument is ignored if Badqual is NULL
`center` | Logical. If True each array is centered to have a 0 mean log-ratio
`loess.cor` | Logical. If True then loess transformation of the data is performed. If False no loess transformation is performed
`min.rep` | Minimum number of non-missing value per gene and per condition. Must be at least 2

### Details

### Value

gene expression data object

### Note

### Author(s)

Paul Delmar

### References

### See Also

### Examples

[Package varmixt version 0.2-4 Index]