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affxparser (version 1.44.0)

cdfMergeAlleles: Function to join CDF allele A and allele B groups strand by strand

Description

Function to join CDF allele A and allele B groups strand by strand.

This function is design to be used with applyCdfGroups() on an Affymetrix Mapping (SNP) CDF list structure.

Usage

cdfMergeAlleles(groups, compReverseBases=FALSE, collapse="", ...)

Arguments

groups
A list structure with groups.
compReverseBases
If TRUE, the group names, which typically are names for bases, are turned into their complementary bases for the reverse strand.
collapse
The character string used to collapse the allele A and the allele B group names.
...
Not used.

Value

Returns a list structure with the two groups forward and reverse, if the latter exists.

Details

Allele A and allele B are merged into a matrix where first row hold the elements for allele A and the second elements for allele B.

References

[1] Affymetrix, Understanding Genotyping Probe Set Structure, 2005. http://www.affymetrix.com/support/developer/whitepapers/genotyping_probe_set_structure.affx

See Also

applyCdfGroups().