qtl

Al-Murphy/MungeSumstats

Rapid standardisation and quality control of GWAS or QTL summary statistics

bmansfeld/QTLseqr

QTLseqr is an R package for QTL mapping using NGS Bulk Segregant Analysis

variani/lme4qtl

Mixed models @lme4 + custom covariances + parameter constraints

RajLabMSSM/echolocatoR

Automated statistical and functional fine-mapping pipeline with extensive API access to datasets.

timflutre/eqtlbma

Package to detect eQTLs jointly in multiple subgroups (e.g. tissues) via Bayesian Model Averaging.

RajLabMSSM/ggLocusZoom

Create LocusZoom-style plots in R.

YaoLab-Bioinfo/binQTL

QTL mapping with binmap data

RajLabMSSM/catalogueR

Easy-to-use R wrappers for the eQTL Catalogue's API (both with tabix and the REST API).

guilherme-pereira/QTLpoly

R package for random-effect multiple QTL mapping in autopolyploids

swvanderlaan/QTLToolKit

A workflow based on QTLtools to run cis- and trans-QTL analyses.

ugcd/solarius

R interface to SOLAR

ljacquin/khamix

Kernelized HAplotype-based MIXed model association mapping (KHAMIX)

PBR/QTM

QTLTableMiner++ tool for mining tables in scientific articles

RajLabMSSM/echoplot

echoverse module: Locus plot creation for fine-mapping and colocalization studies.

senresearch/FlxQTL.jl

A comprehensive QTL analysis tool by multivariate linear mixed model.

CTLife/xQTLs

Scripts for various molecular quantitative trait locus (xQTL) analysis.

fboehm/qtlbim

QTL Bayesian Interval Mapping

kentavv/mapmaker

MapMaker/Exp 3.0b and MapMaker/QTL 1.1, updated to add various improvements including multithreading

molepi-precmed/trans-qtls

Pipeline to compute associations between genome-wide trans QTL scores and phenotype of interest

YaoLab-Bioinfo/binQTL.shiny

GUI for binQTL

biod/MQM

Multiple QTL mapping in the D programming language

candYgene/pbg-ld

Linked Data Platform for Plant Breeding & Genomics

RajLabMSSM/echofinemap

echoverse module: Statistical and functional fine-mapping functions.

swvanderlaan/fastQTLToolKit

fastQTL analysis of methylation and expression data

aabiddanda/qtl-power

antoniogomez/UVIC_TFM_AGomez_2023

Scripts of Final Master Project

SamuelMathieu-code/LaScaMolMR.jl

A molecular Mendelian Randomization tool

Wen-Juan/Decaytrait_qtl

We are investigating the genetic architecture of decayed sexual traits in asexual females of the parasitoid wasp Asobara japonia. In particular, we conduct QTL analysis for the female functional virginity trait, which referes to asexual females resisting to mate or not fertilizing eggs after mating. In the case of A. japonica, asexual females reject mating from males resulting in complete matin failure. We detected a single QTL with large phenotypic effects underlying the female functional virginity trait. Using PacBio genome assembly and transcriptomic RNAseq datasets, we found at least 131 protein coding genes underlying the single QTL, 15 of them showed differential expression in the sexual sister species Asobara tabida.

ytakemon/TheAgingKidney

Zepeng-Mu/qqman

This is a fork from qqman package

zjwinn/Winn-Dissertation-Chapter-3

This is the public repository for information related to the thesis chapter of the same name as the title.

adityamahadevaniyer/RNA-seq

RNA-seq code with Bowtie alignment and generating strain-specific counts using Emase

bioinfonupeb/lbcm-patricia-snps

SNPs selection for QTL study.

mykmal/cowas

The COWAS (co-expression-wide association study) method identifies pairs of co-expressed proteins that are associated with disease.

RajLabMSSM/echodata

echoverse module: Example data.