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Protocols

GWAPower specifications

Information


Unique identifier OMICS_19829
Name GWAPower
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data The heritability (a number in the range 0~1); Total sample size; The number of SNPs in the GWAS; The type 1 error rate.
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Advanced
Version 1.1
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Sheng Feng

Publication for GWAPower

GWAPower citations

 (6)
library_books

Genome wide association meta analysis of fish and EPA+DHA consumption in 17 US and European cohorts

2017
PLoS One
PMCID: 5728559
PMID: 29236708
DOI: 10.1371/journal.pone.0186456

[…] . Genome-wide significance was considered at the Bonferroni-corrected threshold of P<5x10-8. Statistical power to detect a true association at various effect sizes (heritability) was calculated using GWAPower software for the analysis of 1 million independent SNPs for both fish and EPA+DHA (Feng S, 2011 BMC Genetics), assuming linkage disequilibrium (r2) of 0.5 between a SNP and putative causal va […]

library_books

A candidate gene approach to study nematode resistance traits in naturally infected sheep

2017
PMCID: 5567408
PMID: 28807314
DOI: 10.1016/j.vetpar.2017.06.010

[…] s at the SNP locus. Animals with missing data were excluded from relevant analyses; the total number of lambs included in each analysis is detailed in Table S3. Statistical power was calculated using GWAPower software (). […]

library_books

Meta GWAS and Meta Analysis of Exome Array Studies Do Not Reveal Genetic Determinants of Serum Hepcidin

2016
PLoS One
PMCID: 5112847
PMID: 27846281
DOI: 10.1371/journal.pone.0166628

[…] Power analysis were performed using GWAPower Detection V1.1 []. Effective sample size of the VB cohort to take into account relatedness was determined using Greffa software [] based on a pairwise kinship coefficient <0.0625, resulting i […]

call_split

Immunogenetic markers associated with a naturally acquired humoral immune response against an N terminal antigen of Plasmodium vivax merozoite surface protein 1 (PvMSP 1)

2016
Malar J
PMCID: 4891883
PMID: 27255376
DOI: 10.1186/s12936-016-1350-2
call_split See protocol

[…] the R statistical software (version 3.1.1). A Bonferroni correction was used to adjust for multiple testing, and the significance was set at p < 0.005 (0.05/10). The sample size was calculated using GWAPower software []. The current sample size (n = 178) had 80 % power to detect a variant with about 6 % heritability. Since only 90 samples were assessed for IgG subclasses, the power to detect the […]

library_books

Host Genetic Variants and Gene Expression Patterns Associated with Epstein Barr Virus Copy Number in Lymphoblastoid Cell Lines

2014
PLoS One
PMCID: 4188571
PMID: 25290448
DOI: 10.1371/journal.pone.0108384

[…] The statistical power to identify a genetic variant was calculated using GWApower . Imputation of genotyped samples to 1000 Genomes Phase 1 was performed using IMPUTE2 . This increased the number of SNPs in common between the samples from 600,000 to 37 million. These imput […]

library_books

MiR SNPs as Markers of Toxicity and Clinical Outcome in Hodgkin Lymphoma Patients

2013
PLoS One
PMCID: 3660374
PMID: 23705004
DOI: 10.1371/journal.pone.0064716

[…] al analyses were performed using PAS W Statistics 18 (SPSS Inc., Chicago, IL) and R software (v2.13.2). The level of significance was set at≤0.05. The statistical power of the study, calculated using GWAPower, was 0.81580 with the mean sample size of n = 125 (range 0.74561–0.85541). […]

Citations

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GWAPower institution(s)
Department of Biostatistics and Bioinformatics, Duke University, Durham, NC, USA; Department of Statistics, North Carolina State University, Raleigh, NC, USA
GWAPower funding source(s)
Supported by funding from the Measurement to Understand Re-Classification of Disease of Cabarrus and Kannapolis (MURDOCK) Study and by a grant from the NIH CTSA (Clinical and Translational Science Award) 1UL1RR024128-01 to the Duke University.

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