FastEpistasis statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Epistasis detection chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

FastEpistasis specifications

Information


Unique identifier OMICS_10119
Name FastEpistasis
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Parallelization MPI
Computer skills Advanced
Version 2.05
Stability Stable
Maintained Yes

Versioning


Add your version

Maintainer


  • person_outline Thierry Schüpbach <>

Publication for FastEpistasis

FastEpistasis in publications

 (8)
PMCID: 5943287
PMID: 29426878
DOI: 10.1038/s41437-017-0043-0

[…] iants with p-values for association smaller than 10−3, 10−5, 10−7, and 10−9 to build the additive grm to use in the prediction analysis., we also performed a pairwise interaction gwas (epigwas) using fastepistasis (schüpbach et al. ), testing all possible \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepa […]

PMCID: 4938657
PMID: 27185397
DOI: 10.1534/g3.116.028563

[…] most datasets. we aimed to use data from the resource for genetic epidemiology research on adult health and aging (gera) study to search for snp-snp interactions associated with 10 common diseases. fastepistasis and boost were used to evaluate all pairwise interactions among approximately n = 300,000 single nucleotide polymorphisms (snps) with minor allele frequency (maf) ≥ 0.15, […]

PMCID: 4423967
PMID: 25950439
DOI: 10.1371/journal.pone.0126880

[…] fixed effects and taking residuals from the fitted model []. finally we performed a full genome-wide screen for pairwise interactions, fitting models of form y = μ + v a + v b + v a×v b + ε, using fastepistasis []. after the single marker and epistatic gwa analyses, we selected the top trait-associated additive variants and/or epistatic pairs with p < 10-x in the respective training set […]

PMCID: 4341885
PMID: 25655172
DOI: 10.1186/s12863-015-0174-3

[…] purposes of this study, we excluded 3,521,114 snp pairs with a total count of less than 50 in any row, or less than 5 in any cell of the contingency table. in addition to force, we performed plink (fastepistasis mode) on the top-ranked 500 pairs to compare the results obtained with both methods., to assess the utility of exhaustive search, we constructed a reference dataset of snps previously […]

PMCID: 4012196
PMID: 24817878
DOI: 10.3389/fgene.2014.00106

[…] has been implemented in the epistasis module of plink () to test pair-wise diallelic by diallelic epistasis for both quantitative and binary traits. an extension of the plink epistasis module, fastepistasis, uses an efficient parallel computation algorithm to test pair-wise interactions. fastepistasis is 15 times faster than plink using a single core computer (). proposed an approach […]


To access a full list of publications, you will need to upgrade to our premium service.

FastEpistasis institution(s)
Vital-IT Group, Swiss Institute of Bioinformatics, Lausanne, Switzerland; Molecular Modeling Group, Swiss Institute of Bioinformatics, Lausanne, Switzerland; Department of Medical Genetics, University of Lausanne, Lausanne, Switzerland
FastEpistasis funding source(s)
Swiss Institute of Bioinformatics service grant; Swiss National Science Foundation grant #3100AO-116323/1

FastEpistasis reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review FastEpistasis