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seq2R (version 2.0.1)

Simple Method to Detect Compositional Changes in Genomic Sequences

Description

This software is useful for loading '.fasta' or '.gbk' files, and for retrieving sequences from 'GenBank' dataset . This package allows to detect differences or asymmetries based on nucleotide composition by using local linear kernel smoothers. Also, it is possible to draw inference about critical points (i. e. maximum or minimum points) related with the derivative curves. Additionally, bootstrap methods have been used for estimating confidence intervals and speed computational techniques (binning techniques) have been implemented in 'seq2R'.

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Version

Install

install.packages('seq2R')

Monthly Downloads

146

Version

2.0.1

License

GPL

Maintainer

Nora M. Villanueva

Last Published

September 30th, 2024

Functions in seq2R (2.0.1)

seq2R-package

Simple method to detect compositional changes in genomic sequences
read.all

Read FASTA and GBK formatted files
mtDNAhum

Human Mitochondrial DNA
critical

Critical points (maxima and minima)
print.change.points

Short find.points summary
find.points

Simple method to detect compositional changes in genomic sequences
plot.change.points

Visualization of change.points objects
read.genbank

Read DNA sequences from GenBank via internet
transform

Convert biological sequences into binary code