quipu: Summary charts of micro satellite profiles for a set of biological samples

Gene banks increasingly use molecular markers for routine characterization of plant collections and farmer managed diversity. The gene bank of the International Potato Center presently uses a micro-satellite marker kit to produce molecular profiles for potato accessions. We have been searching for a compact graphical representation that shows both molecular diversity and accession characteristics - thus permitting biologists and collection curators to have a simple way to interpret molecular data. Inspired by the ancient Andean data recording system we devised a graph that allows for standardized representation while leaving room for updates of the marker kit and the collection of accessions. The graph has been used in several catalogs of potatoes.

Install the latest version of this package by entering the following in R:
install.packages("quipu")
AuthorReinhard Simon, Pablo Carhuapoma, Vilma Hualla, Stef de Haan, Marc Ghislain, Jorge Nunez, Rene Gomez, Felipe de Mendiburu, William Roca, Merideth Bonierbale
Date of publication2014-04-22 18:49:03
MaintainerReinhard Simon <R.SIMON@CGIAR.ORG>
LicenseGPL-2
Version1.9.0

View on CRAN

Files

inst
inst/examples
inst/examples/ex_runDemo.R inst/examples/rquipu.R
inst/shiny
inst/shiny/ui.R inst/shiny/server.R
inst/doc
inst/doc/Quipu_tutorial.Rnw
inst/doc/Quipu_tutorial.pdf
inst/doc/Quipu_tutorial.R
NAMESPACE
data
data/potato.quipu.rda
data/allele.freqs.rda
R
R/quipu.R
vignettes
vignettes/Quipu_tutorial.Rnw
vignettes/Bioconductor.sty
README.md
MD5
build
build/vignette.rds
DESCRIPTION
man
man/allele.freqs.Rd man/quipu-package.Rd man/rquipu.Rd man/runDemo.Rd man/potato.quipu.Rd

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