SimRVSequences: an R package to simulate genetic sequence data for pedigrees

Christina Nieuwoudt; Angela Brooks-Wilson; Jinko Graham

doi:10.1093/bioinformatics/btz881

SimRVSequences: an R package to simulate genetic sequence data for pedigrees

Bioinformatics. 2020 Apr 1;36(7):2295-2297. doi: 10.1093/bioinformatics/btz881.

Authors

Christina Nieuwoudt¹, Angela Brooks-Wilson^{2

3}, Jinko Graham¹

Affiliations

¹ Department of Statistics and Actuarial Science, Simon Fraser University, Burnaby, BC V5A 1S6.
² Canada's Michael Smith Genome Sciences Centre, BC Cancer, Vancouver, BC V5Z 1L3.
³ Department of Biomedical Physiology and Kinesiology, Simon Fraser University, Burnaby, BC V5A 1S6, Canada.

Abstract

Summary: We present the R package SimRVSequences to simulate sequence data for pedigrees. SimRVSequences allows for simulations of large numbers of single-nucleotide variants (SNVs) and scales well with increasing numbers of pedigrees. Users provide a sample of pedigrees and SNV data from a sample of unrelated individuals.

Availability and implementation: SimRVSequences is publicly-available on CRAN https://cran.r-project.org/web/packages/SimRVSequences/.

Supplementary information: Supplementary data are available at Bioinformatics online.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Humans
Pedigree
Sequence Analysis, DNA*
Software*

Grants and funding

MOP-130311/CAPMC/ CIHR/Canada