mtmcgowan/GGcall: Clusters Infinium SNP chip data in polyploid species and calls genotypes

PolySNPclust calls genotypes from complex Infinium assay signals generated by polyploid species by: -Clustering samples for each marker using Gaussian mixture models -Removing unimportant cluster types (resulting from outliers) with supervised machine learning, -Filtering markers by cluster patterns to only those following biallelic patterns -Calling genotypes for the biallelic markers and outputing a genotype matrix compatible with common GWAS/GS methods

Getting started

Package details

MaintainerThe package maintainer <[email protected]>
LicenseGPL-3
Version0.1.0
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("devtools")
library(devtools)
install_github("mtmcgowan/GGcall")
mtmcgowan/GGcall documentation built on July 31, 2018, 12:17 p.m.