kmeRs_heatmap: K-mer similarity score heatmap

In kmeRs: K-Mers Similarity Score Matrix and HeatMap

K-mer similarity score heatmap

Description

The kmeRs_heatmap function generates a heatmap from similarity score matrix

Usage

kmeRs_heatmap(
  x,
  cexRow = NULL,
  cexCol = NULL,
  col = NULL,
  Colv = NA,
  Rowv = NA
)

Arguments

x	matrix calculated by kmeRs_similarity_matrix function
cexRow	= NULL
cexCol	= NULL
col	color palette, when NULL the default palette is applied
Colv	when different from NA, the column dendrogram is shown
Rowv	when different from NA, the row dendrogram is shown

Value

heatmap from results

Examples

# Use RColorBrewer to generate a figure similar to publication
library(RColorBrewer)
h.palette <- rev(brewer.pal(9, "YlGnBu"))
q0 <- c("GATTACA", "ACAGATT", "GAATTAC", "GAAATCT", "CTATAGA", "GTACATA", "AACGATT")
example <- kmeRs_similarity_matrix(q0, submat = "BLOSUM62")
kmeRs_heatmap(kmeRs_score(example), col = h.palette)

kmeRs documentation built on Sept. 11, 2024, 6:52 p.m.