cbindFiles              Combine a sequence of files by columns
convertPed              Convert large ped files by creating unique IDs,
                        converting allele coding and extracting a
                        selection of SNPs
gwaaToHaplin            Convert a loaded GenABEL 'gwaa.data' object to
                        a Haplin format character matrix
gxe                     Test for gene-environment interaction
hapPower                Power simulation for association analyses with
                        Haplin
hapPowerAsymp           Asymptotic power calculations for genetic
                        association analyses with Haplin
hapRun                  Simulates genetic data and runs Haplin for each
                        simulation
hapSim                  Simulation of genetic data in Haplin format
haplin                  Fitting log-linear models to case-parent triad
                        and/or case-control data
haplinSlide             Fit 'haplin' in a series of sliding windows
                        over a sequence of markers/SNPs
haplinStrat             Fit 'haplin' to each subset/stratum of data,
                        determined by the argument 'strata'
haplinTDT               Transmission disequilibrium tests for
                        case-parent triad data
haptable                Create haplin table
lineByLine              Line-by-line modification of files
output                  Save files with summary, table, and plot from a
                        haplin object.
pQQ                     QQ-plot with confidence intervals for a vector
                        of p-values
pedToHaplin             Convert from ped format data to Haplin format
plot.haplin             Plot a haplin object
plot.haplinTDT          Plot a haplinTDT object
plot.haptable           Plot a haptable object
prepPed                 Extract family and phenotype information from a
                        ped-format file, to prepare for use in Haplin
print.haplin            Print a haplin object
print.summary.haplin    Print the summary of a haplin object
rbindFiles              Combine a sequence of files by rows
snpPos                  Find the column numbers of SNP identifiers/SNP
                        numbers in a ped file
snpPower                Power calculations for a single SNP
snpSampleSize           Sample size calculations for a single SNP
suest                   Compute a joint p-value for a list of haplin
                        fits (usually from a sliding window approach),
                        correcting for multiple testing.
summary.haplin          Summary of a haplin object
summary.haplinTDT       Summary of a haplinTDT object
toDataFrame             Stack dataframes from haplinSlide into a single
                        dataframe
