rqt: an R package for gene-level meta-analysis.

Journal Article (Journal Article)

Motivation

Despite recent advances of modern GWAS methods, it is still remains an important problem of addressing calculation an effect size and corresponding p-value for the whole gene rather than for single variant.

Results

We developed an R package rqt, which offers gene-level GWAS meta-analysis. The package can be easily included into bioinformatics pipeline or used stand-alone. We applied this tool to the analysis of Alzheimer's disease data from three datasets CHS, FHS and LOADFS. Test results from meta-analysis of three Alzheimer studies show its applicability for association testing.

Availability and implementation

The package rqt is freely available under the following link: https://github.com/izhbannikov/rqt.

Contact

ilya.zhbannikov@duke.edu.

Supplementary information

Supplementary data are available at Bioinformatics online.

Full Text

Duke Authors

Cited Authors

  • Zhbannikov, IY; Arbeev, KG; Yashin, AI

Published Date

  • October 2017

Published In

Volume / Issue

  • 33 / 19

Start / End Page

  • 3129 - 3130

PubMed ID

  • 28633423

Pubmed Central ID

  • 28633423

Electronic International Standard Serial Number (EISSN)

  • 1367-4811

International Standard Serial Number (ISSN)

  • 1367-4803

Digital Object Identifier (DOI)

  • 10.1093/bioinformatics/btx395

Language

  • eng