sequences2transmatrix: Transition matrix from sequence(s)

In localScore: Package for Sequence Analysis by Local Score

Transition matrix from sequence(s)

Description

Calculates the transition matrix by counting occurrences of tuples in given vector list

Usage

sequences2transmatrix(sequences)

Arguments

sequences

Sequences to be analyzed, can be a list of vectors, or a vector

Details

In output, score_value is coerced as integer if possible. Else, it is a character vector containing the states of the Markov chain.

Value

A list object containing

transition_matrix	Transition Matrix with row names and column names are the associated score/state
score_value	a vector containing the score/state, ordered in the same way as the matrix columns and rows

Examples

myseq <- sample(LETTERS[1:2], size=20,replace=TRUE)
sequences2transmatrix(myseq)

localScore documentation built on April 3, 2025, 5:26 p.m.