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

被引：0
|
作者：
Mahmoudiandehkordi, Soroush [1 ,2 ]
Maadooliat, Mehdi [1 ,2 ]
Schrodi, Steven J. [2 ,3 ]
机构：
[1] Marquette Univ, Dept Math & Stat Sci, Milwaukee, WI 53233 USA
[2] Univ Wisconsin Madison, Dept Med Genet, 425-g Henry Mall, Madison, WI 53706 USA
[3] Univ Wisconsin Madison, Computat & Informat Biol & Med, Madison, WI 53706 USA
来源：
BIOINFORMATICS ADVANCES | 2024年 / 4卷 / 01期
关键词：
IDENTITY; DESCENT; ASSOCIATION;
D O I：
10.1093/bioadv/vbae115
中图分类号：
Q [生物科学];
学科分类号：
07 ; 0710 ; 09 ;
摘要：
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.
引用
收藏
页数：5
相关论文
共 50 条
  • [41] EMSaov: An R Package for the Analysis of Variance with the Expected Mean Squares and its Shiny Application
    Choe, Hye-Min
    Kim, Mijeong
    Lee, Eun-Kyung
    R JOURNAL, 2017, 9 (01): : 252 - 261
  • [42] tRigon: an R package and Shiny App for integrative (path-)omics data analysis
    Hoelscher, David L.
    Goedertier, Michael
    Klinkhammer, Barbara M.
    Droste, Patrick
    Costa, Ivan G.
    Boor, Peter
    Buelow, Roman D.
    BMC BIOINFORMATICS, 2024, 25 (01)
  • [43] Genome-Wide Data Manipulation, Association Analysis and Heritability Estimates in R with Gaston 1.5
    Dandine-Roulland, Claire
    Perdry, Herve
    HUMAN HEREDITY, 2017, 83 (01) : 6 - 6
  • [44] ShinyAIM: Shiny-based application of interactive Manhattan plots for longitudinal genome-wide association studies
    Hussain, Waseem
    Campbell, Malachy
    Walia, Harkamal
    Morota, Gota
    PLANT DIRECT, 2018, 2 (10)
  • [45] Regional IBD Analysis (RIA): a new method for linkage analysis in extended pedigrees using genome-wide SNP data
    Cordell, Heather J.
    Eu-Ahsunthornwattana, Jakris
    Eu-Ahsunthornwattana, Jakris
    Howey, Richard A. J.
    GENETIC EPIDEMIOLOGY, 2015, 39 (07) : 541 - 542
  • [46] Novel R tools for analysis of genome-wide population genetic data with emphasis on clonality
    Kamvar, Zhian N.
    Brooks, Jonah C.
    Gruenwald, Niklaus J.
    FRONTIERS IN GENETICS, 2015, 6
  • [47] Genome-wide association studies pipeline (GWASpi): a desktop application for genome-wide SNP analysis and management
    Muniz-Fernandez, Fernando
    Carreno-Torres, Angel
    Morcillo-Suarez, Carlos
    Navarro, Arcadi
    BIOINFORMATICS, 2011, 27 (13) : 1871 - 1872
  • [48] QCGWAS: A flexible R package for automated quality control of genome-wide association results
    van der Most, Peter J.
    Vaez, Ahmad
    Prins, Bram P.
    Munoz, M. Loretto
    Snieder, Harold
    Alizadeh, Behrooz Z.
    Nolte, Ilja M.
    BIOINFORMATICS, 2014, 30 (08) : 1185 - 1186
  • [49] GPrank: an R package for detecting dynamic elements from genome-wide time series
    Topa, Hande
    Honkela, Antti
    BMC BIOINFORMATICS, 2018, 19
  • [50] The SNPMaP package for R: a framework for genome-wide association using DNA pooling on microarrays
    Davis, Oliver S. P.
    Plomin, Robert
    Schalkwyk, Leonard C.
    BIOINFORMATICS, 2009, 25 (02) : 281 - 283
12345