Introducing the Fluidigm R- Package
Our Fluidigm R-package was just released on Cran. The package is designed to streamline the process of analyzing genotyping data from Fluidigm machines. It offers a suite of tools for data handling and analysis, making it easier for researchers to work with their data. Here are the key functions provided by the package:
fluidigm2PLINK(...): Converts Fluidigm data to the format used by PLINK, creating a ped/map-file pair from the CSV output received from the Fluidigm machine.estimateErrors(...): Estimates errors in the genotyping data.calculatePairwiseSimilarities(...): Calculates pairwise similarities between samples.getPairwiseSimilarityLoci(...): Determines pairwise similarity loci.similarityMatrix(...): Generates a similarity matrix.
Users can choose to run these functions individually or execute them all at once using the convenient fluidigmAnalysisWrapper(...) wrapper function.