The easiest way to install all of echolocatoR’s dependencies (which include R, Python, and command line tools) and make sure they play well together is to create a conda environment. Therefore echolocatoR drastically reduces the barriers to identifying causal variants by making the entire fine-mapping pipeline rapid, robust and scalable.Īs with most softwares, installation is half the battle. All results are merged into a single per-SNP summary file for additional downstream analysis and results sharing. The elimination of data gathering and preprocessing steps enables rapid fine-mapping of many loci in any phenotype, complete with locus-specific publication-ready figure generation. It also includes extensive access to datasets (linkage disequilibrium panels, epigenomic and genome-wide annotations, QTL). It requires minimal input from users (a GWAS or QTL summary statistics file), and includes a suite of statistical and functional fine-mapping tools. echolocatoR is an R package that automates end-to-end genomics fine-mapping, annotation, and plotting in order to identify the most probable causal variants associated with a given phenotype. Fine-mapping methods are a powerful means of identifying causal variants underlying a given phenotype, but are underutilized due to the technical challenges of implementation.
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