Skip to Main content Skip to Navigation
Journal articles

JASS: command line and web interface for the joint analysis of GWAS results

Abstract : Genome-wide association study (GWAS) has been the driving force for identifying association between genetic variants and human phenotypes. Thousands of GWAS summary statistics covering a broad range of human traits and diseases are now publicly available. These GWAS have proven their utility for a range of secondary analyses, including in particular the joint analysis of multiple phenotypes to identify new associated genetic variants. However, although several methods have been proposed, there are very few large-scale applications published so far because of challenges in implementing these methods on real data. Here, we present JASS (Joint Analysis of Summary Statistics), a polyvalent Python package that addresses this need. Our package incorporates recently developed joint tests such as the omnibus approach and various weighted sum of Z-score tests while solving all practical and computational barriers for large-scale multivariate analysis of GWAS summary statistics. This includes data cleaning and harmonization tools, an efficient algorithm for fast derivation of joint statistics, an optimized data management process and a web interface for exploration purposes. Both benchmark analyses and real data applications demonstrated the robustness and strong potential of JASS for the detection of new associated genetic variants. Our package is freely available at
Document type :
Journal articles
Complete list of metadata

Cited literature [39 references]  Display  Hide  Download
Contributor : Pierre Lechat Connect in order to contact the contributor
Submitted on : Wednesday, May 27, 2020 - 5:29:28 PM
Last modification on : Thursday, April 7, 2022 - 10:10:40 AM


JASS command line and web inte...
Publication funded by an institution


Distributed under a Creative Commons Attribution - NonCommercial 4.0 International License




Hanna Julienne, Pierre Lechat, Vincent Guillemot, Carla Lasry, Chunzi Yao, et al.. JASS: command line and web interface for the joint analysis of GWAS results. NAR Genomics and Bioinformatics, Oxford University Press, 2020, 2 (1), pp.lqaa003. ⟨10.1093/nargab/lqaa003⟩. ⟨pasteur-02635247⟩



Record views


Files downloads