deg_def: A DEG definition function
In csbl-usp/MetaVolcanoR: Gene Expression Meta-analysis Visualization Tool

This function creates a new variable indicating DEGs as -1, 0, 1 based on the user-defined foldchange and p-value criteria

1	deg_def(diffexp, pcriteria, foldchangecol, pv, fc)

`diffexp`	data.frame/data.table with differential expression results
`pcriteria`	column name of the pvalue variable <strings>
`foldchangecol`	column name of the foldchange variable <string>
`pv`	pvalue threshold <double>
`fc`	foldchange threshold <double>

data.table/data.frame with a new deg variable

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data(diffexplist)
diffexp <- deg_def(diffexplist[[1]], "pvalue", "Log2FC", 0.05, 0)
table(diffexp[['deg']])

csbl-usp/MetaVolcanoR documentation built on Nov. 8, 2019, 8:53 p.m.

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