preprocess_data: Preprocess 10X dataset

In NCBI-Hackathons/robustSingleCell: Robust Subpopulation dEcision Trees

Description

Preprocess 10X dataset

Usage

preprocess_data(path, min.cells = 3, min.genes = 200,
  nGene_thresh = NULL, percent_mito_thresh = 0.98,
  mito_thresh = NULL, x.low.cutoff = 0.1, x.high.cutoff = 8,
  y.cutoff = 1, regress = F)

Arguments

path	The path to the dataset
min.cells	The minimum number of cells for each gene
min.genes	The minimum number of genes for each cell
nGene_thresh	The quantile threshold for multilplets based on nGene
percent_mito_thresh	The quantile threshold for multilplets based on mitochondrial gene expression percentage

Value

A Seurat object with data normalized, scaled and PCA performed

Author(s)

Meng Wang

NCBI-Hackathons/robustSingleCell documentation built on May 9, 2019, 3:27 a.m.