plot_principal_curve_projections: Plot embedded cluster principal cluves

In momeara/MPStats: Tools for analyzing Morphological Profiling data

Plot embedded cluster principal cluves

Description

This makes a UMAP density plot and adds principal curves to each cluster

Usage

cluster_principal_curves <- dplyr::bind_cols(
   arrow::read_parquet("input/umap_embedding.parquet"),
   arrow::read_parquet("input/hbscan_clustering.parquet")) 
   MPStats::fit_principal_curves() 
   dplyr::arrange(princurve_order)

plot <- MPStats::plot_embedded_principal_curves(cluster_principal_curves)
ggplot2::ggsave(
  plot=plot,
  filename=paste0("product/embedded_principal_curves_", MPStats::date_code(), ".pdf"),
  width=6, height=6,
  useDingbats=FALSE)
ggplot2::ggsave(
  plot=dye_plot,
  filename=paste0("product/embedded_principal_curves_", MPStats::date_code(), ".png"),
  width=6, height=6)

Arguments

subtitle	plot subtitle
cluster_curves	tibble::tibble with columns UMAP_1 : coordinate 1 of the umap embedding UMAP_2 : coordiante 2 of the umap embedding cluster_id : cluster identifier princurve_1 : coordinate 1 of the principal curve projection princurve_2 : coordiante 2 of the principal curve projection princurve_order : order of points along the principal curve projection

momeara/MPStats documentation built on July 19, 2022, 3:34 p.m.