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% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/plots.R
\name{vis.gene.usage}
\alias{vis.gene.usage}
\alias{vis.V.usage}
\alias{vis.J.usage}
\title{Histogram of segments usage.}
\usage{
vis.gene.usage(
.data,
.genes = NA,
.main = "Gene usage",
.ncol = 3,
.coord.flip = F,
.dodge = F,
.labs = c("Gene", "Frequency"),
...
)
}
\arguments{
\item{.data}{Mitcr data frame or a list with mitcr data frames.}
\item{.genes}{Gene alphabet passed to \link{geneUsage}.}
\item{.main}{Main title of the plot.}
\item{.ncol}{Number of columns in a grid of histograms if \code{.data} is a list and \code{.dodge} is F.}
\item{.coord.flip}{if T then flip coordinates.}
\item{.dodge}{If \code{.data} is a list, than if this is T plot V-usage for all data frames to the one histogram.}
\item{.labs}{Character vector of length 2 with names for x-axis and y-axis.}
\item{...}{Parameter passed to \code{geneUsage}. By default the function compute V-usage or J-usage for beta chains
w/o using read counts and w/ "Other" segments.}
}
\value{
ggplot object.
}
\description{
Plot a histogram or a grid of histograms of V- / J-usage.
}
\examples{
\dontrun{
# Load your data.
load('immdata.rda')
# Compute V-usage statistics.
imm1.vs <- geneUsage(immdata[[1]], HUMAN_TRBV)
vis.V.usage(immdata, HUMAN_TRBV, .main = 'Immdata V-usage [1]', .dodge = T)
# Plot a histogram for one data frame using all gene segment data from V.gene column.
vis.V.usage(imm1.vs, NA, .main = 'Immdata V-usage [1]')
# Plot a grid of histograms - one histogram for V-usage for each data frame in .data.
vis.V.usage(immdata, HUMAN_TRBV, .main = 'Immdata V-usage', .dodge = F, .other = F)
}
}
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