ComputeTotalExpression: Total expression computation

In grandR: Comprehensive Analysis of Nucleotide Conversion Sequencing Data

Total expression computation

Description

Compute the total expression for a particular set of genes.

Usage

ComputeTotalExpression(
  data,
  name,
  genes = Genes(data),
  mode.slot = DefaultSlot(data)
)

Arguments

data	the grandR object
name	the new name by which this is added to the Coldata
genes	define the set of genes to compute the percentage for
mode.slot	which mode.slot to take the values for computing the percentage from

Details

Genes can be referred to by their names, symbols, row numbers in the gene table, or a logical vector referring to the gene table rows.

To refer to data slots, the mode.slot syntax can be used: Each name is either a data slot, or one of (new,old,total) followed by a dot followed by a slot. For new or old, the data slot value is multiplied by ntr or 1-ntr. This can be used e.g. to filter by new counts.

Value

a new grandR object having the total expression in its Coldata table

See Also

Coldata

grandR documentation built on April 4, 2025, 2:27 a.m.