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R package: polySegratio

polySegratio: Simulate and test marker dosage for dominant markers in autopolyploids

Perform classic chi-squared tests and Ripol et al(1999) binomial confidence interval approach for autopolyploid dominant markers. Also, dominant markers may be generated for families of offspring where either one or both of the parents possess the marker. Missing values and misclassified markers may be generated at random.

Maintenance release: I am no longer working in polyploids.

NB Migrated from r-forge to manage project better

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Version

Install

install.packages('polySegratio')

Monthly Downloads

162

Version

0.2-5

License

GPL-3

Maintainer

Peter Baker

Last Published

March 22nd, 2018

Functions in polySegratio (0.2-5)

Print segregation ratios

Adds missing data to objects of class autoMarker or autoCross

expected.segRatio

Compute theoretical segregation proportions for regular autopolyploids

polySegratio-package

Segregation Ratios for Autoployploids

Plot segregation ratios for either observed or simulated marker data

Automatically fill out blanks of a vector with the preceding label

Misclassifies marker data in objects of class autoMarker or autoCross

divideAutoMarkers

S3 class divideAutoMarkers

Generate labels from two columns where blanks in first column are replaced by preceding non--blank label

segregationRatios

Compute observed segregation proportions for dominant markers in autopolyploids

print.testSegRatio

Print objects of class testSegRatio

S3 class segRatio

divide.autoMarkers

Divide markers by parental type

Simulate dominant markers for an autopolyploid cross for all parental types

S3 class testSegRatio

sim.autoMarkers

Simulates dominant markers from an autopolyploid cross

Classic tests for assessing marker dosage in autopolyploids

S3 class simAutoCross

S3 class simAutoMarkers

print.simAutoMarkers

Print objects of class simAutoMarkers