GWAPower protocols

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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

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Maintainer


  • person_outline Sheng Feng <>

Publication for GWAPower

GWAPower in pipeline

2016
PMCID: 4891883
PMID: 27255376
DOI: 10.1186/s12936-016-1350-2

[…] 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 […]


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GWAPower in publications

 (8)
PMCID: 5728559
PMID: 29236708
DOI: 10.1371/journal.pone.0186456

[…] 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 […]

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

[…] 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 ()., a total of twelve snps in il23r, rorc2 and tbx21 were verified by sequencing genomic dna in experimental blackface lambs (). six snps were identified in il23r on chr 1 plus […]

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

[…] array meta-analysis results was based on bonferroni correction of testing ~37,000 variants (p< 1.4 x10-6) and ~14,000 genes (p< 3.6 x10-6), respectively., 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, […]

PMCID: 4337107
PMID: 25527893
DOI: 10.1186/s12881-014-0136-z

[…] manhattan plot of the association results across the adh gene region only, in order to demonstrate that the snp near adh7 is the most highly significant variant in this region. power analyses using gwapower [] showed that the samples contained 80% power to detect an effect explaining 0.053% of the variance.figure 1table 2table 3the minor allele frequency (maf) of rs991316 from the 1000 genomes […]

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

[…] unrelated individuals, once offspring of 101 trios were removed. the statistical power of the study to detect a variant explaining a given proportion of the total trait variance was calculated using gwapower . our study had an 80% power to detect a variant explaining 4.7% of the total variance in relative ebv copy number. the overall distribution of p values showed little evidence of genomic […]


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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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