votecount_mv {MetaVolcanoR} | R Documentation

## A function to draw the 'Vote-counting meta-analysis' MetaVolcano

### Description

This function draws the vote-counting meta-analysis MetaVolcano

### Usage

    votecount_mv(diffexp = list(), pcriteria = "pvalue",
      foldchangecol = "Log2FC", genenamecol = "Symbol", geneidcol = NULL,
      pvalue = 0.05, foldchange = 0, metathr = 0.01, collaps = FALSE,
      jobname = "MetaVolcano", outputfolder = ".", draw = "HTML")

### Arguments

`diffexp` | list of data.frame/data.table (s) with DE results where lines are genes
`pcriteria` | the column name of the Pval criteria to consider <string>
`foldchangecol` | the column name of the foldchange variable <string>
`genenamecol` | the column name of the gene name variable <string>
`geneidcol` | the column name of the gene ID/probe/oligo/transcript variable <string>
`pvalue` | the Pval to use as threshold c(0:1) <double>
`foldchange` | the foldchange to use as DE threshold c(-Inf: Inf) <double>
`metathr` | the proportion of studies a gene has to be DEG to be considered cDEG <double>
`collaps` | if probes should be collapsed based on the DE direction <logical>
`jobname` | name of the running job <string>
`outputfolder` | /path where to write the results/
`draw` | wheather or not to draw a .pdf or .html visualization <c(NULL, 'PDF', 'HTML')>

### Value

MetaVolcano object

### Examples

    data(diffexplist)
    mv <- votecount_mv(diffexplist)
    str(mv)

[Package MetaVolcanoR version 1.2.0 Index]