plots-smallrna: Small RNA-seq quality control plots

In lpantano/bcbioSmallRna: small RNA-Seq Utilities

Description

Plot size distribution of small RNA-seq data.

Usage

bcbSmallSize(bcb, color = NULL)

bcbSmallSizeDist(bcb, color = NULL, percentage = TRUE)

bcbSmallMicro(bcb, color = NULL)

bcbSmallCluster(bcb, color = NULL)

Arguments

bcb	bcbioSmallRnaDataSet.
color	Column in metadata to use to color the bars.
percentage	Whether to plot the percentage or absolute number.

Value

ggplot.

Author(s)

Lorena Pantano, Michael Steinbaugh

Examples

library(DEGreport)
data(sbcb)
bcbSmallSize(sbcb, color = "population")
bcbSmallSizeDist(sbcb, color = "population")
bcbSmallMicro(sbcb, color = "population")
bcbSmallCluster(sbcb, color = "population")
data <- bcbSmallPCA(sbcb, minAverage=8)
degPCA(data[["counts"]], data[["annotation"]], condition = "population")
data <- bcbSmallPCA(sbcb, type = "cluster", minAverage = 8)
degPCA(data[["counts"]], data[["annotation"]], condition = "population")

lpantano/bcbioSmallRna documentation built on March 5, 2020, 9:17 a.m.