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annopred

Genetic risk prediction integrating LD and functional annotations

apoe-genotyper

Tool to genotype allelic variants of ApoE protein using rs429358 and rs7412 from a phased VCF

apptainer

Apptainer: Application containers for Linux

bcftools

This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html

beagle

Beagle Releases from https://faculty.washington.edu/browning/beagle/beagle.html

bix

tabix file access with golang using biogo machinery

cadre_charge_adsp17k

cromwell

Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments

docker-analytics

Dockerized distro-packaged analytics tools

docker-c

Dockerized programs built with c/c++

docker-epacts

EPACTS in docker

docker-java

docker-julia

docker-perl

Docker Perl

docker-python

Example python Docker container

docker-r

R build in docker

docker-shapeit5

Dockerized Binaries for SHAPEIT5 Haplotype Phasing

docker-snptest

Dockerized SNPTEST from https://www.well.ox.ac.uk/~gav/snptest/

docker-utils

OS and Development Utilities

epacts

flare

The flare program performs local ancestry inference

gatk-sv

A structural variation pipeline for short-read sequencing

gcta

GCTA software

genesis

GENetic EStimation and Inference in Structured samples (GENESIS): Statistical methods for analyzing genetic data from samples with population structure and/or relatedness

githubautomation

Automation REST API scripts for managing GH

glnexus

Scalable gVCF merging and joint variant calling for population sequencing projects

gmmat

Generalized linear Mixed Model Association Tests

hihg-um.github.io

University of Miami Miller School of Medicine Hussman institute for Human Genomics