Morphs phased SNPs from SNP6 input into haplotype blocks — GetChromosomeBAFs_SNP6 • Battenberg

This function matches allele frequencies and halplotype info, reverses frequencies by haplotype, combines the output and saves it to disk.

GetChromosomeBAFs_SNP6(
  chrom,
  alleleFreqFile,
  haplotypeFile,
  samplename,
  outputfile,
  chr_names
)

Arguments

chrom: The chromosome number for which this function should run.
alleleFreqFile: File containing allele frequency information.
haplotypeFile: File containing haplotype information.
samplename: Identifier for the sample (used in header of output file).
outputfile: Full path pointing to where output should be written.
chr_names: Vector of chromosome names

Author

dw9