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Protocols

rmeta specifications

Information


Unique identifier OMICS_00245
Name rmeta
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 3.0
Stability Stable
Requirements
stats, grid, graphics
Source code URL https://cran.r-project.org/src/contrib/rmeta_3.0.tar.gz
Maintained Yes

Versioning


No version available

Documentation


Maintainer


  • person_outline Thomas Lumley

rmeta citations

 (125)
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A Genome Wide Linkage Study for Chronic Obstructive Pulmonary Disease in a Dutch Genetic Isolate Identifies Novel Rare Candidate Variants

2018
Front Genet
PMCID: 5916965
PMID: 29725345
DOI: 10.3389/fgene.2018.00133
call_split See protocol

[…] ntrol category. Summary statistics for identified the variants were extracted from the results of . A fixed-effects meta-analysis was performed with the summary statistics from all studies using the “rmeta” package in R (). […]

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Computational repositioning and preclinical validation of mifepristone for human vestibular schwannoma

2018
Sci Rep
PMCID: 5882888
PMID: 29615643
DOI: 10.1038/s41598-018-23609-7
call_split See protocol

[…] e converted to Cohen’s d statistic values and standard error values. Resulting values were combined by gene using a fixed effects meta-analysis (as implemented in the meta.summaries function from the rmeta package in R. Probes without gene annotations were removed from gene-level consolidation. Following consolidation, significantly differentially expressed genes were taken to be those with a Bonf […]

library_books

A transcriptome wide association study identifies PALMD as a susceptibility gene for calcific aortic valve stenosis

2018
Nat Commun
PMCID: 5840407
PMID: 29511167
DOI: 10.1038/s41467-018-03260-6

[…] principal components to evaluate the effect of the top SNP identified in our TWAS analysis. We then performed a fixed-effect meta-analysis using the inverse-variance weighted method as implemented in rmeta package version 2.16 in R. To look for other significant variants associated with CAVS in UK Biobank, we performed a GWAS from the genotyped data using additive logistic regression models in PLI […]

library_books

Leisure time physical activity and prevalence of non communicable pathologies and prescription medication in Spain

2018
PLoS One
PMCID: 5774808
PMID: 29352280
DOI: 10.1371/journal.pone.0191542

[…] sible interaction between PA and sex, the same logistic regression models described beforehand were performed including an interaction term. Analysis was performed using R software and its libraries "rmeta” and “survey”[,], adjusting for the design effects of the EHIS. […]

library_books

Integrated Analysis of Gene Expression Differences in Twins Discordant for Disease and Binary Phenotypes

2018
Sci Rep
PMCID: 5758574
PMID: 29311748
DOI: 10.1038/s41598-017-18585-3

[…] tables for each of the platform types used by the seven different studies. We performed a fixed-effect meta-analysis across probe-level values for each gene (inspired by Sweeney et al.) using the R ‘rmeta’ package. This yielded the overall mean differences, standard errors, and the p-values for each gene for each of the seven studies. Since the seven studies used different microarray platforms, t […]

call_split

The fine scale genetic structure and evolution of the Japanese population

2017
PLoS One
PMCID: 5665431
PMID: 29091727
DOI: 10.1371/journal.pone.0185487
call_split See protocol

[…] rtion of admixture.To test if the timing of admixture agrees among a group of Japanese clusters, we performed meta-analysis of the estimated times and computed the P-value for heterogeneity using the rmeta library (version 2.16) of the R software.To directly model ancestral populations of the Japanese and continental Asians (dataset C), we performed unsupervised genetic clustering using the ADMIXT […]

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