Creates a DE_data object from a tibble or data-frame of differential expression
results.
Usage
DE_data(dat, keep_rownames_as = NULL)
Value
A DE_data object, i.e. a tibble.
Arguments
dat
Tibble, results from a differential expression analysis. See Details.
keep_rownames_as
Character, the name of the column in which to save the
rownames of the input data-frame. Default value is NULL, i.e. rownames will
be discarded.
Details
The input data should have one row per gene or transcript, and at least the
following columns:
chromosome: character column, chromosome on which the gene/transcript is located.
start and end: numeric, starting and end position of the gene/transcript
(in bp). A column position will be constructed as the middle value (mean) between
start and end.
score or padj: numeric, the DE score or adjusted p-value of the
gene/transcript. If column score column is missing, will be constructed
as -log10(padj).
foldChange or log2FoldChange: numeric, the fold-change or log2(fold-change)
of the gene/transcript. If column log2FoldChange is missing, will be constructed
as log2(foldChange).