getMaxWeight: Compute the maximum value of certain measures in the inferred...

In sqjin/CellChat: Inference and analysis of cell-cell communication from single-cell and spatial transcriptomics data

Compute the maximum value of certain measures in the inferred cell-cell communication networks

Description

To better control the node size and edge weights of the inferred networks across different datasets, we compute the maximum number of cells per cell group and the maximum number of interactions (or interaction weights) across all datasets

Usage

getMaxWeight(
  object.list,
  slot.name = c("idents", "net"),
  attribute = c("idents", "count")
)

Arguments

object.list	List of CellChat objects
slot.name	the slot name of object that is used to compute the maximum value. When slot.name = "idents", 'attribute' should be "idents", which will compute the maximum number of cells per cell group across all datasets When slot.name = "net", 'attribute' can be either "count" or "weight", which will compute he maximum number of interactions (or interaction weights) across all datasets When slot.name = "net" or "netP", 'attribute' can be a single pathway name or a ligand-receptor pair name
attribute	the attribute to compute the maximum values. 'attribute' should have the same length as 'slot.name'. 'attribute' can only be "count", "weight","count.merged","weight.merged" or a single pathway name or a ligand-receptor pair name

Value

A numeric vector

sqjin/CellChat documentation built on Nov. 10, 2023, 4:29 a.m.