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gwas

Here are 170 public repositories matching this topic...

hail

hail-is / hail

Star

Scalable genomic data analysis.

python bioinformatics gwas scala spark genomics genetics vcf software hail

Updated Aug 13, 2020
Scala

MareesAT / GWA_tutorial

Star

A comprehensive tutorial about GWAS and PRS

unix bioinformatics gwas r genomics genetics plink prs population-structure qc population-stratification

Updated Jan 3, 2020

stephenturner / qqman

Star

An R package for creating Q-Q and manhattan plots from GWAS results

cran gwas r genomics

Updated Aug 1, 2018
R

choishingwan / PRSice

Star

A software package for calculating, applying, evaluating and plotting the results of polygenic risk scores

Updated Aug 5, 2020
C++

statgen / locuszoom

Star

A Javascript/d3 embeddable plugin for interactively visualizing statistical genetic data from customizable sources.

gwas locuszoom gwas-tools gwas-summary-statistics locuszoom-plot

Updated Aug 7, 2020
JavaScript

VariantSpark

aehrc / VariantSpark

Star

machine learning for genomic variants

emr aws bioinformatics gwas genome random-forest notebook vcf databricks association-studies variant-spark variantspark

Updated Aug 4, 2020
JavaScript

JoniColeman / gwas_scripts

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Codebook from my GWAS cookbook

quality-control gwas imputation

Updated Jun 23, 2020
R

zhanxw / rvtests

Star

Rare variant test software for next generation sequencing data

c-plus-plus gwas kernel genetics ngs next-generation-sequencing variants meta-analysis genotype umich skat association-analysis rare-variant vcf-files

Updated Jul 7, 2020
C++

AdmiralenOla / Scoary

Star

Pan-genome wide association studies

gwas genomics bacteria pan-genome gene-presence-absence

Updated Oct 4, 2017
Python

JonJala / mtag

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Python command line tool for Multi-Trait Analysis of GWAS (MTAG)

gwas statistical-genetics multi-trait-analysis mtag

Updated Jul 27, 2020
Python

mgalardini / pyseer

Star

SEER, reimplemented in python 🐍

🔮

gwas reproducible-science reimplementation bacteria k-mer

Updated May 19, 2020
Python

variani / lme4qtl

Star

Mixed models @lme4 + custom covariances + parameter constraints

gwas ibd family covariance qtl pedigree random-effects kinship relatedness lme4 variance-covariance

Updated Mar 20, 2020
R

johnlees / seer

Star

sequence element (kmer) enrichment analysis

gwas bacteria k-mer

Updated Jan 10, 2020
C++

QTCAT / qtcat

Star

Quantitative Trait Cluster Association Test in R

gwas population-structure

Updated Mar 12, 2018
R

boxiangliu / locuscomparer

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LocusCompareR is a R package with visualization tools for comparing two genetic association datasets.

gwas eqtl colocalization

Updated May 6, 2020
R

slowkow / snpsea

Star

📊 Identify cell types and pathways affected by genetic risk loci.

bioinformatics risk-loci gene tissue gene-sets algorithm enrichment gwas

Updated Dec 18, 2019
C++

blengerich / GenAMap

Star

Visual Machine Learning of Genome-Phenome Associations

bioinformatics gwas structured-association-mapping

Updated Nov 18, 2017
C++

caleblareau / gchromVAR

Star

Cell type specific enrichments using finemapped variants and quantitative epigenetic data

gwas epigenetics atac-seq single-cell

Updated Jan 15, 2020
R

TileDB-Inc / TileDB-VCF

Star

Efficient variant-call data storage and retrieval library using the TileDB storage library.

python data-science bioinformatics gwas spark genomics vcf variant-calling tiledb

Updated Aug 12, 2020
C++

QuantGen / BGData

Star

A Suite of Packages for Analysis of Big Genomic Data

cran gwas r genomics genetics r-pkg

Updated Aug 2, 2020
R

gorpipe / gor

Star

GORpipe is a tool based on a genomic ordered relational architecture and allows analysis of large sets of genomic and phenotypic tabular data using declarative query language, in a parallel execution engine.

python java open-source bioinformatics gwas scala spark genomics genetics vcf software gor gorpipe

Updated Jul 30, 2020
Java

pneuvial / adjclust

Star

Adjacency-constrained hierarchical clustering of a similarity matrix

gwas linkage-disequilibrium hi-c hierarchical-clustering

Updated Jun 19, 2020
R

n-mounier / bGWAS

Star

R package to perform Bayesian Genome-Wide Association Studies

gwas bayesian r-package statistical-genetics

Updated Jul 21, 2020
R

timeu / PyGWAS

Star

python gwas mixed-models emmax

Updated Dec 10, 2018
Python

genetics-statistics / faster_lmm_d

Star

A faster lmm for GWAS. Supports GPU backend.

bioinformatics gwas genomics gpu opencl dlang arrayfire gwas-tools

Updated Dec 5, 2018
D

amkusmec / FarmCPUpp

Star

Perform GWAS using the FarmCPU model.

gwas

Updated Jun 19, 2019
R

roshchupkin / hase

Star

Framework for efficient high-dimensional association analyses.

gwas genetics omics python-packages

Updated Aug 10, 2020
Python

jgx65 / hierfstat

Star

the hierfstat package

gwas r devtools simulations population-genomics population-genetics kinship quantitative-genetics hierfstat fstatistics

Updated Aug 9, 2020
R

lorinanthony / BAKR

Star

Code and Simulations using Bayesian Approximate Kernel Regression (BAKR)

gwas genetics variable-selection bayesian-statistics kernel-regression nonlinear-regression

Updated Jan 31, 2019
C++

bogdanlab / RHOGE

Star

Estimate genetic correlation using predicted expression

gwas rstats statistical-genetics statgen

Updated Mar 8, 2018
R

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