make_dinuc_PWMs: Similarly to the PWM-like matrix for mononucleotides, make...

In snikumbh/archR: Identify Different Architectures of Sequence Elements

Description

This function converts the basis matrix with basis vectors of dinucleotide information into matrix of dimension 16 x (sequence_length) for visualization.

Usage

make_dinuc_PWMs(vec, add_pseudo_counts = TRUE, scale = TRUE)

Arguments

vec	Column vector of the basis matrix
add_pseudo_counts	Whether pesudocounts are to be added. TRUE or FALSE.
scale	Whether to perform per position scaling of the matrix. TRUE or FALSE

Value

A (PWM) matrix with 16 rows corresponding to the dinucleotide combinations of the four nucleotides (A, C, G, T) and the relevant number of columns (i.e., number of elements in given vector/16)

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