Matthew S Lyon's repositories
opengwas-api
API for MRC-IEU OpenGWAS platform (https://gwas.mrcieu.ac.uk)
gwas2vcfweb
Web interface for gwas2vcf
gwas2vcf
Convert GWAS summary statistics to VCF
SomaticAmplicon
NGS pipeline for somatic variant calling from amplicon datasets
IlluminaQC
Shell script for BCL to uBAM, QC and analysis launch
GermlineEnrichment
Variant calling pipeline for germline enrichment NGS data
SoftClipPCRPrimer
Tool for soft-clipping PCR primers based on alignment location
AmpliconRealigner
Tool for realigning soft-clipped bases from amplicon reads
varGWASR
R package to perform regression-based Brown-Forsythe test
varGWAS
GWAS of trait variance (C++)
QUAIL
A unified framework to estimate genetic effects on the variance of quantitative traits
VariantReporterSpark
Apache Spark application for filtering and reporting clinically relevant variants
pygwasvcf
Python library for reading GWAS summary statistics in GWAS-VCF files
gwasglue
Linking GWAS data to analytical tools in R
vgraph
vgraph is a command line application and Python library to compare genetic variants using variant graphs. ``vgraph`` utilizes a graph representation of genomic variants in to precisely compare complex variants that are refractory to comparison by conventional comparison methods.
ieugwasr
R interface to the IEU GWAS database API
ldsc
LD Score Regression (LDSC)
try-manubot
A repository to practice contributing to a Manubot manuscript
jlst
Joint mean and variance tests
vagrant-docker-compose
A Vagrant provisioner for docker compose.
scholar_patents
A parser for Google Scholar, written in Python
gitignore
A collection of useful .gitignore templates
python-sample-send-mail
send email from Python via Microsoft Graph