• iRSpot-EL

• Referenced in 29 articles [sw24776]
• easily used to conduct the genome-wide analysis and the results obtained are quite consistent...

• iRNA-PseU

• Referenced in 19 articles [sw27659]
• test, independent dataset test, and practical genome-wide analysis that the proposed predictor remarkably outperforms...

• GCTA

• Referenced in 16 articles [sw23135]
• GCTA: a tool for genome-wide complex trait analysis. For most human complex diseases ... traits, SNPs identified by genome-wide association studies (GWAS) explain only a small fraction ... user-friendly software tool called genome-wide complex trait analysis (GCTA), which was developed based...

• Affymetrix

• Referenced in 8 articles [sw14673]
• thousands of samples, and targeted to genome-wide analysis...

• ProbABEL

• Referenced in 6 articles [sw10861]
• ProbABEL package for genome-wide association analysis of imputed data. Background: Over the last ... years, genome-wide association (GWA) studies became a tool of choice for the identification ... ProbABEL software package for the analysis of genome-wide imputed SNP data and quantitative, binary ... analyze imputed data in genome-wide context and will facilitate future identification of complex trait...

• qtlbim

• Referenced in 7 articles [sw17320]
• computationally efficient way to perform sensitivity analysis and can be used to quantitatively evaluate ... usage of Bayesian methodology for genome-wide interacting QTL analysis...

• methylKit

• Referenced in 4 articles [sw23479]
• comprehensive R package for the analysis of genome-wide DNA methylation profiles. methylKit...

• MEDIPS

• Referenced in 2 articles [sw17294]
• MEDIPS: genome-wide differential coverage analysis of sequencing data derived from DNA enrichment experiments. Motivation ... wide variety of applications including genome-wide analysis of epigenetic marks and mechanisms. A common...

• P2BAT

• Referenced in 2 articles [sw25497]
• Massive Parallel Implementation of PBAT for Genome-Wide Association Studies in R. The software tool ... analysis tools for family-based association tests (FBATs) in large-scale studies, including genome-wide ... based association studies, P2BAT integrates all PBAT-analysis tools for binary and complex traits into ... through a user-friendly GUI. The genome-wide analysis tools are fully automated...

• HAPGEN2

• Referenced in 6 articles [sw17354]
• evaluating competing experimental designs and analysis methods in genome-wide association studies. Simulation based...

• BEAT

• Referenced in 3 articles [sw23480]
• Genome-wide quantitative analysis of DNA methylation from bisulfite sequencing data. Here we present...

• TATES

• Referenced in 3 articles [sw20044]
• TATES: efficient multivariate genotype-phenotype analysis for genome-wide association studies. To date, the genome...

• RSS

• Referenced in 2 articles [sw23316]
• multiple regression with summary statistics from genome-wide association studies. Bayesian methods for large-scale ... provide attractive approaches to the analysis of genome-wide association studies (GWAS). For example, they ... sparse models; and by incorporating external genomic data into the priors, they can increase power ... public databases. We perform Bayesian multiple regression analysis by combining the RSS likelihood with previously...

• METASOFT

• Referenced in 2 articles [sw33850]
• meta-analysis software tool for genome-wide association study analysis, designed to perform a range...

• FUNC

• Referenced in 2 articles [sw16930]
• gene sets and ontological annotations. Background: Genome-wide expression, sequence and association studies typically yield ... tests in particular well suited for genome wide sequence comparisons, estimates of the family-wise ... useful tool for the analysis of genome-wide data. It is freely available under...

• eqtl

• Referenced in 1 article [sw33825]
• Karl Broman’s ’qtl’ package for genome-wide analysis. Analysis of experimental crosses to identify...

• BioMet

• Referenced in 1 article [sw20501]
• BioMet Toolbox: genome-wide analysis of metabolism. The rapid progress of molecular biology tools...

• WaveSeq

• Referenced in 1 article [sw22384]
• next-generation sequencing is a genome-wide analysis technique that can be used to detect...

• METAL

• Referenced in 2 articles [sw28171]
• computationally efficient tool for meta-analysis of genome-wide association scans, which is a commonly...

• MetNet

• Referenced in 2 articles [sw25662]
• available software in development for analysis of genome-wide RNA, protein and metabolite profiling data ... rotated through different dimensions. Statistical analysis can be computed alongside the visual. MetNet is designed...