preprocessing: preprocessing: filtering step on genes/cells

In yl883/iDESC: iDESC: Identifying differential expression in single-cell RNA sequencing data with multiple subjects

preprocessing: filtering step on genes/cells

Description

preprocessing: filtering step on genes/cells

Usage

preprocessing(
  mat,
  meta,
  subject_var,
  group_var,
  sub_cell_filtering,
  gene_sub_filtering,
  gene_cell_filtering,
  ncell_filtering
)

Arguments

mat	Count matrix
meta	Data frame including information for cells
subject_var	The name of subject information in meta
group_var	The name of group/disease information for DE analysis in meta
sub_cell_filtering	Filtering on cells within each subject
gene_sub_filtering	Filtering on genes based on expression in each subject
gene_cell_filtering	Filtering on genes based on expression across all cells
ncell_filtering	Filtering on cells based on the number of genes expressed

Value

A list of processed count matrix and data frame

yl883/iDESC documentation built on Aug. 2, 2022, 1:21 a.m.