R front-end for TASSEL


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Documentation for package ‘rTASSEL’ version 0.9.8

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assocModelFitter R interface for TASSEL's association methods
distanceMatrix Create a TASSEL distance matrix
distanceToRMatrix Convert TASSEL distance matrix object to an R matrix class
filterGenotypeTableSites Filter genotype table by sites
filterGenotypeTableTaxa Filter genotype table by taxa
getPhenotypeDF Get an R/'tibble' phenotype data frame from TASSEL object
getSumExpFromGenotypeTable Create Summarized Experiment from a TASSEL Genotype Table
kinshipMatrix Create a TASSEL kinship matrix
kinshipToRMatrix Convert TASSEL kinship matrix object to an R matrix class
manhattanPlot Create Manhattan plot from rTASSEL association output
readGenotypePhenotype Wrapper function of TasselGenotypePhenotype class for GenotypePhenotype combined data
readGenotypeTableFromPath Wrapper function of TasselGenotypePhenotype class for genotype data
readPhenotypeFromDataFrame Wrapper function of TasselGenotypePhenotype class for phenotype data from an R data frame
readPhenotypeFromPath Wrapper function of TasselGenotypePhenotype class for phenotype data from a path.
show-method TasselGenotypePhenotype Class
startLogger Start TASSEL logging information
TasselGenotypePhenotype-class TasselGenotypePhenotype Class