GARFIELD specifications

Information


Unique identifier OMICS_14270
Name GARFIELD
Alternative name GWAS Analysis of Regulatory or Functional Information Enrichment with LD correction
Software type Package/Module
Interface Command line interface
Restrictions to use None
Output data Genomic positions of pruned variants, p-values for association with the trait of interest, number of LD tags (r2>0.8), MAF, distance to the nearest TSS and binary representation of annotation information, enrichment analysis results for each annotation
Output format FILE.PREP, FILE.PERM
Operating system Unix/Linux, Mac OS, Windows
Programming languages C++, R
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.9.1
Stability Stable
Requirements
knitr
Maintained Yes

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Documentation


Maintainer


  • person_outline Nicole Soranzo <>

Publication for GWAS Analysis of Regulatory or Functional Information Enrichment with LD correction

GARFIELD in publication

PMCID: 5485531
PMID: 28635624
DOI: 10.3390/genes8060167

[…] can be separately applied to up- and down-regulated genes so as to identify functions that are either magnified or diminished in relation to susceptibility., other popular enrichment tools such as gwas analysis of regulatory or functional information enrichment with ld correction (garfield) [] and genomic regulatory elements and gwas overlap algorithm (gregor) [] also provide […]


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GARFIELD institution(s)
Human Genetics, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, UK; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, UK; MRC Integrative Epidemiology Unit, University of Bristol, Bristol, UK; Department of Haematology, University of Cambridge, Cambridge, UK; The National Institute for Health Research Blood and Transplant Unit in Donor Health and Genomics, University of Cambridge, Cambridge, UK
GARFIELD funding source(s)
Wellcome Trust under awards WT098051 and WT091310; MRC Integrative Epidemiology Unit (Medical Research Council MC_UU_12013/3); EMBL-WTSI

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