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DESCRIPTION
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DESCRIPTION
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Package: GGcall
Type: Package
Title: Clusters Infinium SNP chip data in polyploid species and calls genotypes
Version: 0.1.0
Authors@R: person("Matthew", "McGowan", email = "mmcgowan280@gmail.com",
role = c("aut", "cre"))
Maintainer: The package maintainer <mmcgowan280@gmail.com>
Description: 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
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends:
data.table,
Rmixmod,
parallel,
pbapply,
stringr,
ggplot2,
caret,
RColorBrewer,
dummies
RoxygenNote: 6.0.1