gwid: an R package and Shiny application for Genome-Wide analysis of IBD data.

Autor:	Mahmoudiandehkordi S; Department of Mathematical and Statistical Sciences, Marquette University, Milwaukee, WI 53233, United States.; Department of Medical Genetics, University of Wisconsin-Madison, Madison, WI 53706, United States., Maadooliat M; Department of Mathematical and Statistical Sciences, Marquette University, Milwaukee, WI 53233, United States.; Department of Medical Genetics, University of Wisconsin-Madison, Madison, WI 53706, United States., Schrodi SJ; Department of Medical Genetics, University of Wisconsin-Madison, Madison, WI 53706, United States.; Computation and Informatics in Biology and Medicine, University of Wisconsin-Madison, Madison, WI 53706, United States.
Jazyk:	angličtina
Zdroj:	Bioinformatics advances [Bioinform Adv] 2024 Jul 31; Vol. 4 (1), pp. vbae115. Date of Electronic Publication: 2024 Jul 31 (Print Publication: 2024).
DOI:	10.1093/bioadv/vbae115
Abstrakt:	Summary: Genome-wide identity by descent (gwid) is an R package developed for the analysis of identity-by-descent (IBD) data pertaining to dichotomous traits. This package offers a set of tools to assess differential IBD levels for the two states of a binary trait, yielding informative and meaningful results. Furthermore, it provides convenient functions to visualize the outcomes of these analyses, enhancing the interpretability and accessibility of the results. To assess the performance of the package, we conducted an evaluation using real genotype data derived from the SNPs to investigate rheumatoid arthritis susceptibility from the Marshfield Clinic Personalized Medicine Research Project. Availability and Implementation: gwid is available as an open-source R package. Release versions can be accessed on CRAN (https://cran.r-project.org/package=gwid) for all major operating systems. The development version is maintained on GitHub (https://github.com/soroushmdg/gwid) and full documentation with examples and workflow templates is provided via the package website (http://tinyurl.com/gwid-tutorial). An interactive R Shiny dashboard is also developed (https://tinyurl.com/gwid-shiny). Competing Interests: None declared. (© The Author(s) 2024. Published by Oxford University Press.)
Databáze:	MEDLINE
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