MSIseq (version 1.0.0)

find.mono.repeats: Find Mono-nucleotide Repeats

Description

This function reads in a file with multiple fasta records and find the mononucleotide repeats in the text.

Usage

find.mono.repeats(text, min.len = 5)

Arguments

text

The return object from function read.fasta.

min.len

The minimum length of the mononucleotide repeats searched by the function.

Value

A data frame with 3 columns that are the 3 variables listed above.

Details

This function find the mononucleotide repeats in the text and return a data frame with the following columns.

• chr: a character vector that indicates the chromosome identifier with the "chr" prefix: "chr1", "chr2", ..., "chr22", "chrX", "chrY"
• start: a numeric vector that indicates the start position in the chromosome
• stop: a numeric vector that indicates the end position in the chromosome

See Also

read.fasta