v0.2.1

First archived release of GenotypePlot R package. Summary of changes from initial version described below:

v0.2.1

• is.haploid flag for handling VCFs with haploid genotypes
• Bug fix for cases where VCF IDs are numbers rather than characters

v0.2

• Includes plotting options: phasing, allele frequencies, polarisation
• Handling for multi-allelic VCFs
• Missing data and invariant filtering
• Update to clustering method based on PCA of genotype matrix
• Updated documentation and shiny app demo

v0.1

• Individual filtering/reordering performed with bcftools, resolves issues with filtering vcf with vcfR.
• Popmap is checked against the VCF prior to reading in, and errors are caught.
• vcf_object flag added, can be used to read vcfR objected already in R and allows package to be used with windows
• Error messages and general reporting fixes
• invariant_filter flag added, so invariant filtering now optional but still default.
• SNP marker labels improved so are added at regular intervals

v0.0.9

Original R package