votecount_mv {MetaVolcanoR} | R Documentation |
This function draws the vote-counting meta-analysis MetaVolcano
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")
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')> |
MetaVolcano object
data(diffexplist) mv <- votecount_mv(diffexplist) str(mv)