import.ace.from.10X.generic: Imports data from a 10X experiment folder and constructs an...

In shmohammadi86/ACTIONetExperiment: ACTIONetExperiment container object

Imports data from a 10X experiment folder and constructs an 'SingleCellExeriment' object

Description

Imports data from a 10X experiment folder and constructs an 'SingleCellExeriment' object

Usage

import.ace.from.10X.generic(
  input_path,
  mtx_file = "matrix.mtx.gz",
  feature_metadata = "features.tsv.gz",
  sample_metadata = "barcodes.tsv.gz",
  sep = "\t",
  use.names = TRUE,
  prefilter = FALSE,
  ...
)

Arguments

input_path	Folder containing input files.
mtx_file	Count file in Matrix Market format (default='matrix.mtx').
feature_metadata	Table of the same size as number of rows in the count matrix (default='features.tsv').
sample_metadata	Table of the same size as number of columns in the count matrix (default='barcodes.tsv').
sep	Column-separator used in the row/column annotations files (default='\t').
prefilter	Whether to prefilter rows/columns of input counts matrix. Must specify filtering parameters to pass to filter.ace().

Value

'SingleCellExeriment' object

Examples

ace = import.ace.from.10X.generic(input_path, prefilter=TRUE, min_feats_per_cell = 500)

shmohammadi86/ACTIONetExperiment documentation built on Sept. 13, 2023, 8:55 p.m.