make_sinuc_PWMs: Make a PWM-resembling matrix out of a given n-vector

In snikumbh/archR: Identify Different Architectures of Sequence Elements

Description

The given matrix (or simply a vector) is reshaped to have four rows for four nucleotides and a relevant number of columns.

Usage

make_sinuc_PWMs(mat, add_pseudo_counts = TRUE, scale = TRUE)

Arguments

mat	Actually a vector that will be reshaped into a (PWM) matrix of DNA sequences.
add_pseudo_counts	Logical, taking values TRUE or FALSE, specifying whether or not pseudocounts are added to the matrix.
scale	Logical, taking values TRUE or FALSE, specifying whether or not the matrix is scaled column-wise, i.e., all columns summed to 1.

Value

A (PWM) matrix with 4 rows corresponding to the 4 nucleotides (A, C, G, T) and the relevant number of columns (i.e., number of elements in given vector/4)

snikumbh/archR documentation built on July 5, 2021, 8:46 a.m.