export.res {varmixt} | R Documentation

## Format and export analysis results

### Description

This function builds a single data.frame with all the analysis results, computes the rank of genes based on their p-value and computes a ratio from the log-ratio.

### Usage

    export.res(data,filename=NULL,header=TRUE,comment=NULL,lambda=seq(0,0.95,0.05))

### Arguments

`data` | A gene expression data object. The results of vm.analysis of vm.analysis.paired function
`filename` | the name of the output file. If NULL no file is written
`header` | a logical value indicating whether the file contains the names of the variables as its first line.
`comment` |
`lambda` |

### Details

### Value

a data.frame with all the analysis results, computes the rank of genes based on their p-value and computes a ratio from the log-ratio.

`geneid` | gene name
`ratio` | ratio
`qual` | Number of low quality observations
`pval.VM2` | p-value with the variance mixture model
`corrected.pval.VM2` | corrected p-value with the variance mixture model(Bonferroni)
`test.stat.VM2` | test statistic with the variance mixture model
`sigmadeltagVM2` | standard deviation of deltag with the variance mixture model
`group` | variance component (variance mixture model)
`rank.p.VM2` | rank according to the variance mixture model p-value
`rank.p.VM` | rank according to the variance mixture model p-value without assigning gene to variance groups
`rank.p.gene` | rank according to the gene-specific p-value
`rank.p.anova` | rank according to the homoscedastic p-value
`pval.gene` | p-value with the gene specific model
`corrected.pval.gene` | corrected p-value with gene specific model (Bonferroni)
`test.stat.gene` | test statistic with gene-specific model
`sigmadeltag` | standard deviation of deltag with the gene-specific model
`varg` | gene-specific variance of the gene
`pval.anova` | p-value with the homoscedastic model
`corrected.pval.anova` | corrected p-value with homoscedastic model (Bonferroni)
`test.stat.anova` | test statistic with the homoscesatic model
`sigmadeltaanova` | standard deviation of deltag with the homoscesatic model
`pval.VM2` | p-value with the variance mixture model without assigning genes to variance groups
`corrected.pval.VM2` | corrected p-value with the variance mixture model(Bonferroni) without assigning genes to variance groups
`test.stat.VM` | test statistic with the continuous variance mixture model
`sigmadeltagVM` | standard deviation of deltag with the continuous variance mixture model
`rank.VM2` | rank according to the variance mixture model test statistic
`rank.gene` | rank according to homoscedastic test statistic
`rank.anova` | rank according to homoscedastic test statistic
`rank.VM` | rank according to the continuous variance mixture model test statistic
`deltag` | mean log2-ratio
`meanint` | mean log2-intensity

### Note

### Author(s)

Paul Delmar

### References

### See Also

`vm.analysis`, `vm.analysis.paired`

### Examples

[Package varmixt version 0.2-4 Index]