plot_df: Plot variants from a dataframe
In robertopreste/mitovizR: Plot Human Mitochondrial Variants

Description Usage Arguments Value

View source: R/plot_df.R

Adds a geom_point layer to the output of mito_plot showing mitochondrial variants contained in the given dataframe.

plot_df(dataframe, pos_col = "POS", ref_col = "REF", alt_col = "ALT",
  sample_col = "SAMPLE", gt_col = "GT", hf_col = "HF",
  show_loci_names = TRUE, show_loci_legend = TRUE,
  show_var_labels = FALSE, title = "", save_plot = FALSE,
  save_to = "mitoviz_plot.png")

`dataframe`	Name of the input dataframe
`pos_col`	Name of column containing variants position (default = "POS")
`ref_col`	Name of column containing variants reference allele (default = "REF")
`alt_col`	Name of column containing variants alternate allele (default = "ALT")
`sample_col`	Name of column containing sample name for each variant (default = "SAMPLE")
`gt_col`	Name of column containing GT information, mostly from VCF files (default = "GT")
`hf_col`	Name of column containing HF information, mostly from VCF files (default = "HF")
`show_loci_names`	Show labels of loci names on the genome (default = TRUE)
`show_loci_legend`	Show legend for locus type colours (default = TRUE)
`show_var_labels`	Show labels with the position for each variant (default = FALSE)
`title`	Set plot title (default = "")
`save_plot`	Save the current plot to a file (default = FALSE)
`save_to`	Path or filename to which the current plot will be saved (default = "mitoviz_plot.png")