makeSignMatrixRank#

Date

2022-10-06

https://github.com/drieslab/Giotto/tree/suite/R/spatial_enrichment.R#L180

Description#

Function to convert a single-cell count matrix and a corresponding single-cell cluster vector into a rank matrix that can be used with the Rank enrichment option.

Usage#

makeSignMatrixRank(
  sc_matrix,
  sc_cluster_ids,
  ties_method = c("random", "max"),
  gobject = NULL
)

Arguments#

Argument

Description

sc_matrix

matrix of single-cell RNAseq expression data

sc_cluster_ids

vector of cluster ids

ties_method

how to handle rank ties

gobject

if giotto object is given then only genes present in both datasets will be considered

Value#

matrix

Seealso#

`rankEnrich <#rankenrich>`__