We provide all the simulation code in the LSMM paper. We also provide an example to reproduce the results of real data analysis in the paper. The data sets analyzed in this paper, including nine genic category annotations, 127 cell-type specific functional annotations, and the summary statistics of 30 GWASs can be downloaded here.
Jingsi Ming, Mingwei Dai, Mingxuan Cai, Xiang Wan, Jin Liu, Can Yang; LSMM: A statistical approach to integrating functional annotations with genome-wide association studies, Bioinformatics, Volume 34, Issue 16, 15 August 2018, Pages 2788–2796, https://doi.org/10.1093/bioinformatics/bty187