Whole-genome sequencing analysis
Year: 2018
Type: software
Abstract: This repository contains R scripts for risk score analysis and annotation clustering in An et al. Genome-wide de novo risk score implicates promoter variation in autism spectrum disorder. Science 362, eaat6576 (2018). DOI: 10.1126/science.aat6576. The raw data are not included in this repository. For data generation, please refer to https://github.com/sanderslab/WGS-pipeline. The latest version of this code is available at https://github.com/lingxuez/WGS-Analysis. Risk score analysis Compute the predictive R2 of rare annotations: risk_score/predictive_r2.R Compute the p-value: risk_score/significance_r2.R Annotation clustering Spectral clustering of annotation categories: clustering/clustering.R Network analysis Forming the graph and determining the significance of each cluster of nodes: network/network.R Because many custom functions are needed for this step, a supplemental R package is located in network/supernodeWGS to encapsulate all the needed functions
Source: Figshare
Authors: Zhu, Lingxue, Lin, Kevin, Roeder, Kathryn
Institution: Carnegie Mellon University
Language: English
Subfield: Cognitive Neuroscience
Field: Neuroscience
Domain: Life Sciences
Open Access status: green
OpenAlex ID: W6893190034