phraber/pixelgram: Pixel View with Accompanying Phylogram of Sequence Alignment

This package will plot a nucleotide and/or amino acid sequence alignment together with a user-provided phylogenetic tree. Alignments are shown in pixel (raster) format, whereby sequences correspond to rows and follow the tree leaf order. Options are provided to specify a reference sequence or consensus to transform the pixel view, whereby only sites that mismatch the reference sequence are shown. This enables viewing sequence variation in light of the phylogeny.

install.packages("remotes")
remotes::install_github("phraber/pixelgram")