deletionHeatmap: Graphical output of single chromosome deletions

Description Usage Arguments Details Value Examples

View source: R/graphic_functions.R

Description

The deletionHeatmap function generates a graphical output of the single chromosome deletions in multiple samples.

Usage

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deletionHeatmap(
  hap_table,
  chain = c("IGH", "IGK", "IGL"),
  kThreshDel = 3,
  html_output = FALSE
)

Arguments

hap_table

haplotype summary table. See details.

chain

the IG chain: IGH,IGK,IGL. Default is IGH.

kThreshDel

the minimum lK (log10 of the Bayes factor) used in createFullHaplotype to call a deletion. Indicates the color for strong deletion. Defualt is 3.

html_output

If TRUE, a html5 interactive graph is outputed insteaed of the normal plot. Defualt is FALSE

Details

A data.frame created by createFullHaplotype.

Value

A single chromosome deletion visualization.

Examples

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# Plotting single choromosme deletion from haplotype inference
deletionHeatmap(samplesHaplotype)

rabhit documentation built on July 12, 2020, 1:06 a.m.