The CTPR (Cross-Trait / Cross-eThnic Penalized Regression) software was originally developed for multi-trait polygenic risk prediction in large cohorts and is subsequently being extended for multi-ethnic polygenic risk prediction.
In order to download CTPR, you should clone this repository via the commands
git clone https://github.com/wonilchung/CTPR.git
cd CTPR
Short tutorials describing how to install and run CTPR can be found in the following wiki: https://github.com/wonilchung/CTPR/wiki/CTPR-User-Manual.
The CTPR algorithm is described in the following reference:
Wonil Chung, Jun Chen, Constance Turman, Sara Lindstrom, Zhaozhong Zhu, Po-Ru Loh, Peter Kraft and Liming Liang (2019), Efficient cross-trait penalized regression increases prediction accuracy in large cohorts using secondary phenotypes. Nature Communications, 10(1), 569. Link
If you have any questions on CTPR software, please email to Wonil Chung (wchung@hsph.harvard.edu).