seq2R (version 2.0.1)

transform: Convert biological sequences into binary code

Description

Biological sequences are categorical variables. With this function the four nucleotides are coded with two bits, 0 and 1 (binary numeral system) for being used by almost all modern computers.

Usage

transform(x)

Value

The returned list has two component ($AT, $CG). Both of them containing a matrix with values about their critical points (maximum and minimum), and their lower and upper 95% confidence intervals.

AT

Variable A and T with binary system.

CG

Variable C and G with binary system.

Arguments

x

The object obtained with read.all or read.genbank functions is the argument required for transform. The nature of the sequence is DNA. Sequences are returned as a vector of single characters.

Author

Nora M. Villanueva and Marta Sestelo.

Examples

library(seq2R)

#mtDNAhum <- read.genbank("NC_012920")
data(mtDNAhum)
DNA <- transform(mtDNAhum)
DNA