Genome-wide association studies (GWASs) have successfully identified many sequence variants that are significantly associated with common diseases and traits. Tens of thousands of such trait-associated SNPs have already been cataloged, which we believe form a great resource for genomic research. Recent studies have demonstrated that the collection of trait-associated SNPs can be exploited to indicate whether a given genomic interval or intervals are likely to be functionally connected with certain phenotypes or diseases. Despite this importance, currently, there is no ready-to-use computational tool able to connect genomic intervals to phenotypes. Here, we present traseR, an easy-to-use R Bioconductor package that performs enrichment analyses of trait-associated SNPs in arbitrary genomic intervals with flexible options, including testing method, type of background and inclusion of SNPs in LD. The traseR R package preloaded with up-to-date collection of trait-associated SNPs are freely available in Bioconductor zhaohui.qin@emory.edu Supplementary data are available at Bioinformatics online.
Genome - wide association studies ( GWASs ) have successfully identified many sequence variants that are significantly associated with common diseases and traits . Tens of thousands of such trait - associated SNPs have already been cataloged , which we believe form a great resource for genomic research . Recent studies have demonstrated that the collection of trait - associated SNPs can be exploited to indicate whether a given genomic interval or intervals are likely to be functionally connected with certain phenotypes or diseases . Despite this importance , currently , there is no ready - to - use computational tool able to connect genomic intervals to phenotypes . Here , we present traseR , an easy - to - use R Bioconductor package that performs enrichment analyses of trait - associated SNPs in arbitrary genomic intervals with flexible options , including testing method , type of background and inclusion of SNPs in LD . The traseR R package preloaded with up - to - date collection of trait - associated SNPs are freely available in Bioconductor zhaohui.qin@emory.edu Supplementary data are available at Bioinformatics online .
Which R / bioconductor package is used for performing SNP enrichment analysis?
Which R / bioconductor package is used for performing SNP enrichment analysis ?
traseR
traseR