pbmc

<p>UMI counts for a subset of cells freely available from 10X Genomics</p>

datasets

A normalization method for single-cell UMI count data using a
variance stabilizing transformation. The transformation is based on a
negative binomial regression model with regularized parameters. As part of the
same regression framework, this package also provides functions for
batch correction, and data correction. See Hafemeister and Satija (2019)
<doi:10.1186/s13059-019-1874-1>, and Choudhary and Satija (2022) <doi:10.1186/s13059-021-02584-9>
for more details.

Saket Choudhary

sctransform

Variance Stabilizing Transformations for Single Cell UMI Data

Christoph Hafemeister

Rahul Satija

pbmc function

<p>A sparse matrix (dgCMatrix, see Matrix package) of molecule counts.
There are 914 rows (genes) and 283 columns (cells). This is a downsampled
version of a 3K PBMC dataset available from 10x Genomics.</p>

pbmc: Peripheral Blood Mononuclear Cells (PBMCs)

Description

Usage

Arguments

Format