umapParamGridReport: umapParamGridReport

In demuellae/muRtools: Mueller's R tools

umapParamGridReport

Description

Generate a report with plots of UMAP dimension reduction plots for parameter combinations

Usage

umapParamGridReport(
  X,
  outDir,
  metric = c("euclidean"),
  min_dist = c(0.01, 0.05, seq(0.1, 0.9, by = 0.1)),
  n_neighbors = c(5, 15, 25, 50),
  ...
)

Arguments

X	feature matrix containing one row for each observation and one column for each feature
outDir	output directory
metric	parameters passed on to uwot::umap()
min_dist	parameters passed on to uwot::umap()
n_neighbors	parameters passed on to uwot::umap()
...	parameters passed on to getDimRedPlot

Value

a muReportR report (HTML) showing dimension reduction plots for the grid search

Author(s)

Fabian Mueller

demuellae/muRtools documentation built on Sept. 8, 2023, 4:32 p.m.