ParameterScan.internal: Run HDBSCAN over parameter ranges Must use Python HDBSCAN...

In CamaraLab/STvEA: Spatially-resolved Transcriptomics via Epitope Anchoring

Run HDBSCAN over parameter ranges Must use Python HDBSCAN because it has 2 important parameters (min_cluster_size and min_samples) but R HDBSCAN only has one (minPts) Takes matrices and data frames instead of STvEA.data class

Description

Run HDBSCAN over parameter ranges Must use Python HDBSCAN because it has 2 important parameters (min_cluster_size and min_samples) but R HDBSCAN only has one (minPts) Takes matrices and data frames instead of STvEA.data class

Usage

ParameterScan.internal(
  cite_latent,
  min_cluster_size_range,
  min_sample_range,
  ...
)

Arguments

cite_latent	CITE-seq latent space (cells x dimensions)
min_cluster_size_range	vector of min_cluster_size arguments to scan over
min_sample_range	vector of min_sample arguments to scan over
...	extra parameters to be passed into UMAP

CamaraLab/STvEA documentation built on April 2, 2024, 6:07 a.m.