Pinned Repositories
AnnoPred
Genetic risk prediction integrating LD and functional annotations
bfGWAS
single class model
biotools
A list of useful bioinformatics resources
BoxPlotR.shiny
shiny application to generate box plots with R
burden_testing
A collection of scripts to run genome-wide burden testing using MONSTER.
CTPR
CTPR software
FM-pipeline
FineMapping analysis using GWAS summary statistics
fusion_twas
methods for functional summary-based imputation
gwas
Scripts for GWAS association and metaanalysis
locuscomparer
LocusCompareR is a R package with visualization tools for comparing two genetic association datasets.
GeneticResources's Repositories
GeneticResources/bfGWAS
single class model
GeneticResources/FM-pipeline
FineMapping analysis using GWAS summary statistics
GeneticResources/gwasurvivr
GWAS Survival Package in R
GeneticResources/MetaGWASToolKit
A ToolKit to perform a Meta-analysis of Genome-Wide Association Studies
GeneticResources/polygenic-risk-scores
Script to calculate polygenic risk scores in a genotyped sample using GWAS summary statistics from a disease/trait.
GeneticResources/algorithms_and_data_structures
180+ Algorithm & Data Structure Problems using C++
GeneticResources/ASMC
Ascertained Sequentially Markovian Coalescent
GeneticResources/bcbioRNASeq
Quality control and differential expression for bcbio RNA-seq experiments.
GeneticResources/caviar
GeneticResources/CONFIT
association testing in multiple traits
GeneticResources/coreutils
upstream mirror
GeneticResources/dlib
A toolkit for making real world machine learning and data analysis applications in C++
GeneticResources/DosageConvertor
DosageConvertor is a C++ tool to convert dosage files (in VCF format) from Minimac3/4 to other formats such as MaCH or PLINK.
GeneticResources/Eagle
Haplotype phasing software
GeneticResources/emeraLD
tools to efficiently retrieve and calculate LD
GeneticResources/fatdistnGWAS
Code and data for 'Meta-analysis of genome-wide association studies for body fat distribution in 694,649 individuals of European ancestry'
GeneticResources/Gimpute
An efficient genetic data imputation pipeline
GeneticResources/LeetCode
:pencil: Python / C++ 11 Solutions of All LeetCode Questions
GeneticResources/LocusExplorer
An interactive graphical illustration of genetic associations and their biological context
GeneticResources/modern-cpp-tutorial
📚 C++11/14/17 On the Fly
GeneticResources/OneLiners
OneLiners
GeneticResources/plink-ng
A comprehensive update to the PLINK association analysis toolset. Beta testing of the first new version (1.90), focused on speed and memory efficiency improvements, is finishing up. Future development will revolve around critical extensions to the core file format (multiallelic variants, dosage, phase).
GeneticResources/Popcorn
Software for estimating correlation of trait effect sizes across populations
GeneticResources/Probabilistic-Programming-and-Bayesian-Methods-for-Hackers
aka "Bayesian Methods for Hackers": An introduction to Bayesian methods + probabilistic programming with a computation/understanding-first, mathematics-second point of view. All in pure Python ;)
GeneticResources/PRSice-1
A software package for calculating, applying, evaluating and plotting the results of polygenic risk scores
GeneticResources/Sarek
Detect germline or somatic variants from normal or tumour/normal whole-genome sequencing data
GeneticResources/snpsea
:bar_chart: Identify cell types and pathways affected by genetic risk loci.
GeneticResources/SV-Adjudicator
GeneticResources/UKBB_ldsc
Sample code for ldsc analyses in UKBB
GeneticResources/vcflib
a simple C++ library for parsing and manipulating VCF files, + many command-line utilities