sgRankView: View sgRNA rank.

In MAGeCKFlute: Integrative Analysis Pipeline for Pooled CRISPR Functional Genetic Screens

Description

View sgRNA rank.

Usage

sgRankView(
  df,
  gene = NULL,
  top = 3,
  bottom = 3,
  neg_ctrl = NULL,
  binwidth = 0.3,
  interval = 0.1,
  bg.col = "gray90",
  filename = NULL,
  width = 5,
  height = 3.5,
  ...
)

Arguments

df	A data frame, which contains columns of 'sgrna', 'Gene', and 'LFC'.
gene	Character vector, specifying genes to be plotted.
top	Integer, specifying number of top genes to be plotted.
bottom	Integer, specifying number of bottom genes to be plotted.
neg_ctrl	A vector specifying negative ctrl genes.
binwidth	A numeric value specifying the bar width.
interval	A numeric value specifying the interval length between each bar.
bg.col	A character value specifying the background color.
filename	Figure file name to create on disk. Default filename="NULL", which means no output.
width	As in ggsave.
height	As in ggsave.
...	Other available parameters in function 'ggsave'.

Value

An object created by ggplot.

Author(s)

Yihan Xiao

Examples

file2 = file.path(system.file("extdata", package = "MAGeCKFlute"),
                  "testdata/rra.sgrna_summary.txt")
sgrra = ReadsgRRA(file2)
sgRankView(sgrra)

MAGeCKFlute documentation built on Nov. 8, 2020, 5:40 p.m.