Stars
Batch effect adjustment based on negative binomial regression for RNA sequencing count data
Course materials for SISG Module 12: Computational Pipeline for WGS Data, July 18-20, 2018
The tutorial for performing single-/multi-trait association analysis of whole-genome/whole-exome sequencing (WGS/WES) studies using FAVORannotator, STAARpipeline and STAARpipelineSummary
Pipeline to generate ultra-rare transmitted callsets for genomes and exomes
Overview of the data QC, code, and GWAS summary output from the 2017 UK Biobank data release
An R package for performing association analysis of whole-genome/whole-exome sequencing (WGS/WES) studies using STAARpipeline
Official home of genome aligner based upon notion of Cactus graphs
This tutorial is provided for the UK Biobank Data Training Workshop, Tokyo, Japan
Tokyo Symposium on Genomic Medicine (2024)
Access share reviewed code & Jupyter Notebooks for use on the UK Biobank (UKBB) Research Application Platform. Includes resources from DNAnexus webinars, online trainings and workshops.
Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
A tool for genotyping Variable Number Tandem Repeats (VNTR) from sequence data
Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads
Read-based phasing of genomic variants, also called haplotype assembly
De novo tandem repeat calling from PacBio HiFi data
HiFi-based caller for highly similar paralogous genes
Scripts to make data for comparative transcritomes from public database
R-package for structural equation modeling based on GWAS summary data
Software for estimating correlation of trait effect sizes across populations
Collection of tools for the analysis of CpG data
Scripts and workflows for use analyzing UK Biobank data from the DNANexus Research Analysis Platform
pbsv - PacBio structural variant (SV) calling and analysis tools
Tandem repeat genotyping and visualization from PacBio HiFi data
A minimap2 frontend for PacBio native data formats