svenstringer/genematrix: Create a Table with Gene Annotation and Output in Convenient Format

The GeneMatrix package is designed to create an annotated gene table based on Gencode gene definitions, with a focus on brain-related information. Gene definitions are based on Gencode, matched with entrez genes and the official HGNC gene names to create a core matrix. This preprocessed and filtered core matrix includes the final genes that can be annotated with third- party information. Currently the following annotations can be included: Exac pLI constraint scores for all exac subjects and subjects without a psychiatric disorder, Brain Expression levels and diffrential expression SCZ vs controls in PLFC based on Common Mind data, Gwas catalog hits, OMIM associations, Gene-based p-values for several brain-related phenotypes. This software is created in collaboration with Patrick Sullivan.

Getting started

Package details

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Installation Install the latest version of this package by entering the following in R:
svenstringer/genematrix documentation built on May 26, 2017, 11:03 p.m.