transbioZI/Gimpute: Gimpute: An efficient genetic data processing and imputation pipeline

Genotype imputation is essential for genome-wide association studies (GWAS) to retrieve information of untyped variants and facilitate comparability across studies. Based on widely used and freely available tools, we have developed Gimpute, an automated processing and imputation pipeline for genome-wide association data. Gimpute includes processing steps for genotype liftOver, quality control, population outlier detection, haplotype pre-phasing, imputation, post imputation, data management and the extension to other existing pipeline.

Getting started

Package details

AuthorJunfang Chen, Dietmar Lippold, Emanuel Schwarz
Bioconductor views Alignment Genetics GenomeWideAssociation GenomicVariation QualityControl SNP VariantDetection
MaintainerJunfang Chen <junfang.chen33@gmail.com>
LicenseGPL-3
Version1.2
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("transbioZI/Gimpute")
transbioZI/Gimpute documentation built on Sept. 15, 2020, 12:40 p.m.