haplotypes: Haplotype Inference and Statistical Analysis of Genetic Variation

Provides S4 classes and methods for reading and manipulating aligned DNA sequences, supporting an indel coding methods (only simple indel coding method is available in the current version), showing base substitutions and indels, calculating absolute pairwise distances between DNA sequences, and inferring haplotypes from DNA sequences or user provided absolute character difference matrix. This package also includes S4 classes and methods for estimating genealogical relationships among haplotypes using statistical parsimony.

Version: 1.0
Depends: R (≥ 3.1.1), methods, network
Suggests: sna
Published: 2015-04-26
Author: Caner Aktas
Maintainer: Caner Aktas <caktas.aca at gmail.com>
License: GPL-2
URL: http://cran.r-project.org, https://biolsystematics.wordpress.com/r/
NeedsCompilation: no
CRAN checks: haplotypes results

Downloads:

Reference manual: haplotypes.pdf
Package source: haplotypes_1.0.tar.gz
Windows binaries: r-devel: haplotypes_1.0.zip, r-release: haplotypes_1.0.zip, r-oldrel: haplotypes_1.0.zip
OS X El Capitan binaries: r-release: haplotypes_1.0.tgz
OS X Mavericks binaries: r-oldrel: haplotypes_1.0.tgz

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