Results from callGenotypes

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Description

An S4 class containing a table and parameter values returned by callGenotypes

Details

projectName

In which project does this run belong

runName

Which run was this. An identifier for the sequence run

marker

Which marker was this.

genotypeTable

A data frame with variant counts, statistics, genotype calls and, optionally, allele names.

callMethod

Which method was used to call genotypes

callParameters

a named list containing parameter values used in the call

mappedToAlleles

TRUE/FALSE whether an attempt was made to map the variants to a db on known alleles.

alleleDbName

A list of objects of class variantMap. Contains all variants returned by mlgt

See Also

callGenotypes, writeGenotypeCallsToFile