Online

Implements a popular cis-QTL mapping strategy in a user- and cluster-friendly tool. FastQTL also proposes an efficient permutation procedure to control for multiple testing. The outcome of permutations is modeled using beta distributions trained from a few permutations and from which adjusted p-values can be estimated at any level of significance with little computational cost. FastQTL also provides a modular base onto which new functionalities are being implemented, such as fine mapping of causal variants, conditional analysis to discover multiple independent QTLs per phenotype and interaction analysis to discover sex or disease specific QTLs.

User report

0 user reviews

0 user reviews

No review has been posted.

FastQTL forum

No open topic.

FastQTL versioning

No versioning.

FastQTL classification

FastQTL specifications

Software type:
Package
Restrictions to use:
None
Programming languages:
C++
Version:
FastQTL version 2-184
Interface:
Command line interface
Operating system:
Unix/Linux, Mac OS
Computer skills:
Advanced
Stability:
Stable

Publications

  • (Ongen et al., 2015) Fast and efficient QTL mapper for thousands of molecular phenotypes. Bioinformatics.
    PMID: 26708335

Credits

Institution(s)

Department of Genetic Medicine and Development, University of Geneva Medical School, Geneva, Switzerland; Institute for Genetics and Genomics in Geneva (iGE3), University of Geneva, 1211 Geneva, Switzerland; Swiss Institute of Bioinformatics, Geneva, 1211, Switzerland; NORMENT, KG Jebsen Centre for Psychosis Research, Institute of Clinical Medicine, University of Oslo, Norway

Funding source(s)

This research is supported by grants from European Commission SYSCOL FP7, European Research Council, Louis Jeantet Foundation, Swiss National Science Foundation, SystemsX, the NIHNIMH (GTEx) and Helse Sør Øst.

Link to literature

Related QTL mapping tools

Most Recent Tools

QMSim
Desktop

QMSim

Simulates large-scale genotyping data in multiple and complex livestock…

Simulates large-scale genotyping data in multiple and complex livestock pedigrees. QMSim helps to validate new approaches for fine mapping and genomic selection. The simulation is basically carried…

PEPIS
Web

PEPIS Pipeline for estimating EPIStatic effect

A web server-based tool for analysing polygenic epistatic effects. PEPIS is…

A web server-based tool for analysing polygenic epistatic effects. PEPIS is based on a linear mixed model that has been used to predict the performance of hybrid rice. It includes two main…

EXPLoRA-web
Web

EXPLoRA-web

A web service wrapped around our previously published algorithm EXPLoRA, which…

A web service wrapped around our previously published algorithm EXPLoRA, which exploits linkage disequilibrium (LD) to increase the power and accuracy of quantitative trait loci identification in…

PruneDIRECT
Desktop

PruneDIRECT

An algorithm for multiple quantitative trait locus (QTL) scan with epistatic…

An algorithm for multiple quantitative trait locus (QTL) scan with epistatic interactions. PruneDIRECT algorithm has specific strengths for permutation testing. It has been integrated to a flexible,…

16 related tools

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.