DNAToNumerical: Convert DNAStringSet object into one-hot encoding

In morphos30/DeepG4: A deep learning approach to predict active G-quadruplexes

Convert DNAStringSet object into one-hot encoding

Description

Convert DNAStringSet object into one-hot encoding

Usage

DNAToNumerical(
  x,
  tabv = c(T = 4, G = 3, C = 2, A = 1),
  lower.case = F,
  seq.size = 201
)

Arguments

x	DNAStringSet object
tabv	named vector list of numerical values which indicate the numerical value of a nucleotide.
lower.case	Set to TRUE if the DNA in your sequence is encoded in lower.case i.e. "acgt", default set to FALSE.
seq.size	Set the sequence maximal length value authorized by our model (default to 201).

Value

An array of dimension nrow(x),ncol(x),length(tabv)

Examples

x <- Biostrings::DNAStringSet(c("ACGT"))
x_onehot <- DNAToNumerical(x)
x_onehot

morphos30/DeepG4 documentation built on June 11, 2022, 10:38 p.m.