getSampleIndices-methods: Get sample indices.
In gact/shmootl: QTL Analysis Utilities for Yeast

Description Usage Arguments Value See Also

Get indices of the specified samples. Samples can be specified at one of the following levels: sample, strain, or tetrad. If none are specified, all sample indices are returned.

getSampleIndices(cross.info, samples = NULL, strains = NULL,
  tetrads = NULL, simplify = FALSE)

## S4 method for signature 'CrossInfo'
getSampleIndices(cross.info, samples = NULL,
  strains = NULL, tetrads = NULL, simplify = FALSE)

`cross.info`	A `CrossInfo` object.
`samples`	Vector indicating samples to consider. This may be a logical vector of samples, an integer vector of sample indices, or a character vector that contains sample IDs or their equivalent syntactically valid name.
`strains`	Vector indicating strains to consider. This may be a logical vector of strains, an integer vector of strain indices, or a character vector that contains strain IDs or their equivalent syntactically valid name.
`tetrads`	Vector indicating tetrads to consider. This may be a logical vector of tetrads, or an integer vector of tetrad indices.
`simplify`	Simplify list return value to a vector.

If samples are specified by strain or tetrad, and if the option simplify is not TRUE, this method returns a list of integer vectors, each containing the sample indices corresponding to a given strain/tetrad. Otherwise, a vector of sample indices is returned.

Other CrossInfo methods: getAlleles, getCrosstype, getGenotypes, getMarkerIndices, getMarkerNames, getMarkerSeqs, getMarkers, getNumMarkers, getNumPhenotypes, getNumSamples, getNumSeqs, getPhenotypeIndices, getPhenotypeNames, getPhenotypes, getSampleNames, getSamples, getSeqIndices, getSeqMarkers, getSeqNames, getSequences, getStrainIndices, getTetradIndices, hasMarkerSeqs, hasSampleIDs, hasStrainIndices, hasTetradIndices, setAlleles, setCrosstype, setGenotypes, setMarkerSeqs, setMarkers, setPhenotypes, setSamples, setSequences, setStrainIndices, setTetradIndices