randomSingleCells: Simulate single cell sequencing data

In SITH: A Spatial Model of Intra-Tumor Heterogeneity

Description

Simulate single cell sequencing data by random selecting cells from the tumor.

Usage

randomSingleCells(tumor, ncells, fpr = 0, fnr = 0)

Arguments

tumor	A list which is the output of simulateTumor().
ncells	The number of cells to sample.
fpr	The false positive rate
fnr	The false negative rate

Details

The procedure is exactly the same as singleCell() except that it allows multiple cells to be sequenced at once (chosen randomly throughout the entire tumor).

Value

A data frame with sample names on the row and mutation ID on the column. A 1 indicates that the mutation is present in the cell and a 0 indicates the mutation is not present.

Author(s)

Phillip B. Nicol <[e-mail]>

Examples

out <- simulateTumor(max_pop = 1000)
df <- randomSingleCells(tumor = out, ncells = 5, fnr = 0.1) 

SITH documentation built on Jan. 5, 2021, 5:08 p.m.