Genetic Relatedness Between Polyclonal Infections

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Documentation for package ‘dcifer’ version 1.2.1

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

calcAfreq	Calculate Allele Frequencies
dres	Dcifer results
dsmp	Sample data
format	Read and Reformat Data
formatAfreq	Read and Reformat Data
formatDat	Read and Reformat Data
generateReval	Grid of Parameter Values
getCOI	Calculate COI
ibdDat	Pairwise Relatedness
ibdEstM	Estimate Relatedness and a Number of Related Strains
ibdPair	Relatedness Between Two Samples
logReval	Logarithms of 'reval'
matchAfreq	Match Samples and Allele Frequencies
plotColorbar	Colorbar
plotRel	Plot Relatedness Estimates
probUxUy	Likelihood for U_x, U_y
readAfreq	Read and Reformat Data
readDat	Read and Reformat Data
revals	Parameter grid