SPsimSeq-package: SPsimSeq package

In CenterForStatistics-UGent/SPsimSeq: Semi-parametric simulation tool for bulk and single-cell RNA sequencing data

SPsimSeq package

Description

SPsimSeq uses a specially designed exponential family for density estimation to constructs the distribution of gene expression levels from a given real RNA sequencing data (single-cell or bulk), and subsequently, simulates a new dataset from the estimated marginal distributions using Gaussian-copulas to retain the dependence between genes. It allows simulation of multiple groups and batches with any required sample size and library size.

Author(s)

Alemu Takele Assefa [e-mail]

Stijn Hawinkel [e-mail]

References

• Alemu Takele Assefa, Jo Vandesompele, Olivier Thas. (2020). SPsimSeq: semi-parametric simulation of bulk and single cell RNA sequencing data, Bioinformatics, , btaa105, https://doi.org/10.1093/bioinformatics/btaa105

CenterForStatistics-UGent/SPsimSeq documentation built on April 23, 2024, 4:09 p.m.