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quipu

First time installation

install.packages("devtools")
devtools::install_github("quipu", "c5sire")

Demo

quipu::runDemo()

Usage

library(quipu)

example(rquipu)

Right-click on link to download the tutorial.

Standardizing molecular diversity profiles of plant genetic resources using concepts from Andean quipus

Simon R*, Carhuapoma R, Hualla V, de Haan S, Ghislain M, Nuňez J, Zorilla C, Gomez R, de Mendiburu F, Roca W, Bonierbale M

The chart shows SSR marker weights on a linear scale where each allele or 'gel band' is represented by a circle. The circle's diameter can be sized proportionally by its rareness (default: the wider the rarer) within a set of accessions. The purpose is to facilitate the visual screening and comparison of genotypes with regard to these two questions:

What is the overall pattern of alleles in a genotype?

Which genotypes have rare alleles?

A sample image showing a fully annotated chart (parameter 'layout = "full"':

A sample image showing a minimal chart (parameter 'layout = "no text"':

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Version

Install

install.packages('quipu')

Monthly Downloads

19

Version

1.9.0

License

GPL-2

Maintainer

Last Published

April 22nd, 2014

Functions in quipu (1.9.0)

allele.freqs

Sample allele frequencies
quipu-package

Quipu-type charts for a set of SSR markers.
rquipu

Creates quipu-type charts for a set of SSR markers
potato.quipu

SSR sample data for a set of potato accessions
runDemo

Run a short interactive demo