High-Performance De Novo RNA-Transcript Reconstruction Leveraging Distributed Memory and Massive Parallelization
These researchers are working to optimize the performance of the Trinity RNA-Seq de novo assembly software. This project exemplifies collaborative software development between industry and academia to tackle computational challenges in manipulating large volumes of next-gen sequence data and to leverage advances in algorithm development and compute hardware. Three versions of Trinity's Inchworm computationally intensive part (one that is based on the original OpenMP version, and two new versions that are based on MPI and on Fortran2008) are integrated into the Galaxy web interface.
A bibliography of this group's publications acknowledging MSI is attached.