shinyPlot_SNPratio: Shiny: Plot SNP-ratio
In EG-lisy/BSAvis: Bulk Segregant Analysis - Visualisation Package

Please note that this function is not to be run manually. Creates plots specific to the R-shiny application, showing SNP-ratio values against the position of a specific chromosome.

shinyPlot_SNPratio(
  vcf.df.SNPratio.filt,
  chrList,
  chrID,
  chr,
  min.SNPratio,
  degree = 2,
  span = 0.07,
  ranges
)

`vcf.df.SNPratio.filt`	filtered data frame (containing both bulks)
`chrList`	list of chromosome IDs
`chrID`	chromosome ID of interest
`chr`	chromosome number to print on plot
`min.SNPratio`	min SNP ratio threshold
`degree`	LOESS smoothing degree (default=2)
`span`	LOESS smoothing span (default=0.07)
`ranges`	axes ranges (x,y)

This function is a variant of the plot_SNPratio() function created to meet the needs of the R-shiny application. The difference with the original is that it includes a "ranges" argument that allows setting the limits of the x and y-axis, to show a zoomed area of the SNP-ratio plot when selected. If no area is selected, the x and y axis limits will be set to null, showing the entire plot.

This function does not include any arguments related to plot saving since this functionality is linked to a saving button found inside the BSAvis R-Shiny application.

EG-lisy/BSAvis documentation built on Dec. 17, 2021, 5:38 p.m.