HiTMapper: HiTMapper

In matei-ionita/flowMapper: Graph-based modeling of cell states.

HiTMapper

Description

Wrapper for the core Mapper functionality.

Usage

HiTMapper(
  data,
  total_nodes = 100,
  resolution = 1,
  defs = NULL,
  grid_size = c(4, 3),
  min_node_size = 50,
  n_passes = 10
)

Arguments

data	A data matrix, with observations along rows and variables along columns.
total_nodes	Approximate number of nodes for the Mapper graph.
resolution	Used in community detection. Larger values lead to more communities. We recommend running HiTMapper with default resolution, and later customizing if necessary using the detect_communities function, at very little computational cost.
defs	A data frame of cell population definitions, to be used for labeling communities.
grid_size	Array of integers, the number of bins along each principal component.
min_node_size	Minimum number of cells in a node.
n_passes	Number of passes over all data points when clustering.

matei-ionita/flowMapper documentation built on Oct. 17, 2023, 9:45 p.m.