# R front-end for TASSEL

## Documentation for package ‘rTASSEL’ version 0.9.8

- DESCRIPTION file.

## Help Pages

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