bin_metadata: Spatio-molecular binning of relative expression intensities

In dkzhang777/SlideCNA: Calls Copy Number Alterations from Slide-Seq Data

Spatio-molecular binning of relative expression intensities

Description

This function combines metadata with binned relative expression intensities

Usage

bin_metadata(
  md,
  dat,
  avg_bead_per_bin = 12,
  pos = TRUE,
  pos_k = 55,
  ex_k = 1,
  hc_function = "ward.D2",
  plot_directory
)

Arguments

md	data.table of metadata of each bead
dat	data.table of smoothed relative expression intensities
avg_bead_per_bin	integer of average number of beads there should be per bin
pos	TRUE if doing spatial and expressional binning, FALSE if just expressional binning
pos_k	positional weight
ex_k	expressional weight
hc_function	hierarchical clustering function
plot_directory	output plot directory path

Value

A data.table of bead metadata combined with binned expression intensities for all genes for all beads

dkzhang777/SlideCNA documentation built on Jan. 25, 2025, 5:53 p.m.