geneset_embed_list_seurat: Generate activity scores (embeddings) for a list of feature...

In CBMR-Single-Cell-Omics-Platform/SCOPfunctions: Single Cell Omics Platform Functions

Description

A variant of geneset_embed that works with a list of feature sets and takes and returns a Seurat object

Usage

geneset_embed_list_seurat(
  seurat_obj,
  list_vec_geneWeights,
  slot = "scale.data",
  assay = "SCT",
  min_feats_present = 5,
  n_cores_max = Inf
)

Arguments

seurat_obj	A Seurat object
list_vec_geneWeights	a list of numeric vectors of weights with feature names. Weights should be pre-normalized
slot	Seurat object slot to use
assay	Seurat object assay to use
min_feats_present	a minimum number of features shared between mat_datExpr and vec_geneWeights
n_cores_max	max number of cores to use in multicore processing. To use sequential processing, set to 1

Value

a Seurat object with feature embeddings added to metadata

CBMR-Single-Cell-Omics-Platform/SCOPfunctions documentation built on May 29, 2021, 3:52 p.m.