writeGeneResult {SpeCond} | R Documentation

## Write a condition-specific analysis result text file

### Description

`writeGeneResult` produces a text file containing the list of gene, if they have been detected as tissue-specific or not (S/N), for how many tissues in total, how many tissue as up-regulated, how many tissue as down-regulated, in which tissues for up-regulated and down-regulated.

### Usage

    writeGeneResult(L.specific.result, file.name.result.gene =
     "gene_summary_result.txt", gene.names = NULL)

### Arguments

`L.specific.result` | the `L.specific.result` list of the included in the result of the main `SpeCond` function: generalResult$specificResult$L.specific.result
`file.name.result.gene` | the name of the produced file containing the list of specific genes an thier specific detection
`gene.names` | vector of gene's names to select a suset of genes. The default is NULL, all genes from the input matrix in `SpeCond` function are used

### Author(s)

Florence Cavalli, florence@ebi.ac.uk

### See Also

`SpeCond`,`getProfile`,`writeSpeCondResult`,`writeUniqueProfileSpecificResult`

### Examples

    library(SpeCond)
    data(expressionSpeCondExample)
    ##Perform the condition specific detection analysis with SpeCond()
    generalResult=SpeCond(expressionSpeCondExample,
      param.detection=NULL, multitest.correction.method="BY", prefix.file="E",
      print.hist.pv=TRUE, fit1=NULL, fit2=NULL, specificOutlierStep1=NULL)
    specificResult=generalResult$specificResult

    ##write the result file
    writeGeneResult(specificResult$L.specific.result, file.name.result.gene=
      "Example_gene_summary_result.txt", gene.names=
       rownames(expressionSpeCondExample)[1:10])

[Package SpeCond version 1.46.0 Index]