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skater: an R package for SNP-based kinship analysis, testing, and evaluation [version 1; peer review: 2 approved, 1 approved with reservations]

Authors :
Stephen D. Turner
V.P. Nagraj
Matthew Scholz
Shakeel Jessa
Carlos Acevedo
Jianye Ge
August E. Woerner
Bruce Budowle
Author Affiliations :
<relatesTo>1</relatesTo>Signature Science, LLC., Austin, TX, 78759, USA<br /><relatesTo>2</relatesTo>Center for Human Identification, Department of Microbiology, Immunology, and Genetics, University of North Texas Health Science Center, Fort Worth, TX, 76107, USA
Source :
F1000Research. 11:18
Publication Year :
2022
Publisher :
London, UK: F1000 Research Limited, 2022.

Abstract

Motivation: SNP-based kinship analysis with genome-wide relationship estimation and IBD segment analysis methods produces results that often require further downstream process- ing and manipulation. A dedicated software package that consistently and intuitively imple- ments this analysis functionality is needed. Results: Here we present the skater R package for SNP-based kinship analysis, testing, and evaluation with R. The skater package contains a suite of well-documented tools for importing, parsing, and analyzing pedigree data, performing relationship degree inference, benchmarking relationship degree classification, and summarizing IBD segment data. Availability: The skater package is implemented as an R package and is released under the MIT license at https://github.com/signaturescience/skater. Documentation is available at https://signaturescience.github.io/skater.

Details

ISSN :
20461402
Volume :
11
Database :
F1000Research
Journal :
F1000Research
Notes :
[version 1; peer review: 2 approved, 1 approved with reservations]
Publication Type :
Academic Journal
Accession number :
edsfor.10.12688.f1000research.76004.1
Document Type :
software-tool
Full Text :
https://doi.org/10.12688/f1000research.76004.1