zerland's repositories
CTGCatalog
A collection of commonly used resources for complex trait genetics.
epigraphdb-breast-cancer
Breast cancer risk factors exploration with MR-EvE and literature-mined data in EpiGraphDB
FUMA-webapp
Source code of FUMA GWAS web application
vargen
VarGen is an R package designed to get a list of variants related to a disease. It just need an OMIM morbid ID as input and optionally a list of tissues / gwas traits of interest to complete the results. You can also use your own customised list of genes. VarGen is capable of annotating the variants to help you identify the most impactful ones.
allCardiacMRI
Genome-wide association on left atrial volume and function
BESIDEMR
BayEsian Set IDEntification Mendelian randomization
GWASpops.pheno2geno
R package for GWAS catalog extension which collects and visualizes allele frequency population data
INTACT
Integration of TWAS and Colocalization Analysis
LocoColoc
Consolidation of ColocQuiaL, eQTLPlot and Sudha's Gene Based Coloc tools
machine_learning
Machine learning in R
MAGMA_Celltyping
Find causal cell-types underlying complex trait genetics
metabrain
Various scripts to process RNAseq data for brain eQTL analysis
mr.genius
A R package implements GENIUS-MAWII. Reference: Ting Ye, Zhonghua Liu, Baoluo Sun, and Eric Tchetgen Tchetgen (2021). GENIUS-MAWII: For Robust Mendelian Randomization with Many Weak Invalid Instruments.
MR_template
Template for running PWMR on Rosalind
mrbma
Mendelian Randomization Bayesian Model Averaging
R-scripts
Basic R code
rGREAT
GREAT Analysis - Functional Enrichment on Genomic Regions
susieR
R package for "sum of single effects" regression.
systemsgenetics
Generic Java genotype reader / writer, QTL mapping software, Strand alignment tool