diplo.potato.SNP


Contains data for set of 384 SNP markers from Illumina GoldenGate arrays of 64 diploid potato varieties. SNP markers are identical to those in tetraploid dataset.


datasets

Package fitTetra contains three functions that can be used
to assign genotypes to a collection of tetraploid samples based
on bialleleic marker assays. Functions fitTetra (to fit several
models for one marker from the data and select the best
fitting) or saveMarkerModels (calls fitTetra for multiple
markers and saves the results to files) will probably be the
most convenient to use. Function CodomMarker offers more
control and fits one specified model for a given marker.

Gerrit Gort

fitTetra

fitTetra is an R package for assigning tetraploid genotype
scores

diplo.potato.SNP function

A data frame with 24576 observations on the following 6 variables.
  <dl>
    <dt><code>MarkerName</code></dt><dd>a factor with levels <code>PotSNP001</code> to <code>PotSNP384</code></dd> <dt><code>SampleName</code></dt><dd>a factor with 64 levels</dd> <dt><code>X_Raw</code></dt><dd>a numeric vector, raw intensity of first channel</dd> <dt><code>Y_Raw</code></dt><dd>a numeric vector, raw intensity of second channel</dd> <dt><code>Theta</code></dt><dd>a numeric vector, angle in (2/pi)*radials and first polar coordinate, obtained from GenomeStudio</dd> <dt><code>R</code></dt><dd>a numeric vector, radius and second polar coordinate, obtained from GenomeStudio</dd> </dl> 

Format

Described in Anithakumari AM, J Tang, HJ van Eck, RFG Visser, JAM Leunissen, B Vosman, CG van der Linden (2010). <em>A pipeline for high throughput detection and mapping of SNPs from EST databases</em>. Mol. Breeding 26: 65-75

diplo.potato.SNP: SNP data for diploid potato

Description

Usage

Arguments

Format

Source

Examples