import.ace.from.10X.h5: A simple wrapper to import data from a 10X experiment folder...

In shmohammadi86/ACTIONetExperiment: ACTIONetExperiment container object

A simple wrapper to import data from a 10X experiment folder (v2 or v3) and constructs an 'SingleCellExeriment' object

Description

A simple wrapper to import data from a 10X experiment folder (v2 or v3) and constructs an 'SingleCellExeriment' object

Usage

import.ace.from.10X.h5(
  fname,
  version = 3,
  genome = NULL,
  use.names = TRUE,
  prefilter = FALSE,
  ...
)

Arguments

fname	Input HDF5 file
version	2 or 3
genome	genome to import. Default is to import the first (if many)
prefilter	Whether to prefilter genes/cells based on the counts.mat
min.cell.frac.per.gene	Minimum fraction of cells capturing a gene for it to be retained, if prefilter=TRUE (default=0.005)
min.genes.per.cell	Minimum number of required captured genes per cell, if prefilter=TRUE (default=500)

Value

'SingleCellExeriment' object

Examples

ace = import.ace.from.10X.h5(fname = fname, prefilter=TRUE)

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