Generate UMAP for the final prediction based on fixed window eg.100kb bin widows — PlotUMAP_fixedwindow • MethScope

Generate UMAP for the final prediction based on fixed window eg.100kb bin widows

Usage

PlotUMAP_fixedwindow(
  query_fn,
  knowledge_fn,
  prediction_result,
  n_component = 30,
  seed = 123,
  ...
)

Arguments

query_fn: File path to query .cg
knowledge_fn: File path to 100bk bins window or reference pattern
prediction_result: Prediction result from PredictCellType
n_component: Number of PCA components to use (Default: 30)
seed: A number for random seed (Default: 123)
...: Additional arguments passed to uwot::umap (e.g., n_neighbors, metric).

Value

A list of two ggplot2 UMAP object.