deepPCA: Generate a PCA plot from DepMap data

In Solatar/setR:

Description

Generate a PCA plot from DepMap data

Usage

deepPCA(deepResult, groupBy = NA, size = 5, deepFilter = NA, labels = F)

Arguments

deepResult	Any data.table with DepMap_IDs for cell lines (ACH-000002 etc.) in its 1st column and cell line names in its 2nd column. Ideally generated by dmFilter().
groupBy	vector of groupBy names to be extracted
size	dot size
deepFilter	table with metadata about cell lines. Can be generated with deepFilter(), or leave as NA to use a default

Value

ggplot2 object. Legend title can be set with ggplot2::labs(color=...). Axis labels can be set with ggplot2::xlab(...) and ylab(...)

Examples

df1 <- deepFilter(disease="Leukemia")
df2 <- deepResult(df1)
pca1 <- deepPCA(df2, "lineage_subtype")

Solatar/setR documentation built on Dec. 5, 2020, 10:50 p.m.