countErccMolecules: Obtain ERCC molecule counts from concentrations

In LTLA/scRNAseq: Collection of Public Single-Cell RNA-Seq Datasets

Obtain ERCC molecule counts from concentrations

Description

Compute the number of molecules for each transcript in the ERCC spike-in mixture, based on their published concentration as well as the volume of the diluted mixture added to each cell.

Usage

countErccMolecules(volume, dilution, mix = c("1", "2"), ...)

Arguments

volume	Numeric scalar specifying the added volume (in microliters) of ERCC spike-in mixture.
dilution	Numeric scalar specifying the dilution factor used for the added volume of the spike-in mixture.
mix	String specifying whether to compute the number of molecules for mix 1 or 2.
...	Further arguments to pass to fetchDataset.

Value

A DataFrame object with one row per ERCC spike-in transcript. This contains the estimated concentration and molecule count for each transcript.

Author(s)

Aaron Lun, based on code from Alan O'Callaghan

Examples

countErccMolecules(volume = 9, dilution = 300000)

LTLA/scRNAseq documentation built on April 24, 2024, 5:58 p.m.