The Explorer Cluster is fully operational. If you have any questions or issues, please contact the Research Computing team at rchelp@northeastern.edu.
This course introduces researchers to the Explorer cluster via the terminal and Open OnDemand (OOD) Website. Learn how to transfer files, submit jobs, check job status, and work interactively on the OOD. Serena Caplins, PhD Associate Bioinformatician, Research Computing Serena has extensive experience with non-model organism genomics, including de novo genome or transcriptome assembly, genome annotation, genome liftover,…
Join Arsalan Akhter for a beginner-level session created for Explorer users to familiarize themselves with utilizing various NVIDIA GPUs that are available to them on the cluster. The session includes various hands-on exercises that demonstrate how to launch jobs on the GPU partition with or without specific GPUs, as well as how to run TensorFlow…
This training session will introduce the concept of reproducibility and cover the ways in which reproducibility can be increased. Serena Caplins, PhD Associate Bioinformatician, Research Computing Serena has extensive experience with non-model organism genomics, including de novo genome or transcriptome assembly, genome annotation, genome liftover, variant calling, and population genetics. She is eager to help biologists with their computing needs…
An introduction for Explorer users to learn the basics of the Linux command line and scripting using the standard Linux command shell BASH. Ghanghoon (Will) Paik, PhD HPC Performance Engineer Ghanghoon (Will) holds a PhD in Aerospace Engineering from Penn State University. With a background in high performance computing (HPC), he specializes in optimizing computational…
Version control tools like Git are essential for scientific reproducibility by tracking exact changes to code, data pipelines, configuration files, and analysis scripts, enabling researchers to recreate prior results precisely. This could cover Git basics (init, commit, branch, merge) tailored to research use cases, then cover best practices like atomic commits, meaningful messages, .gitignore for…
This course introduces researchers to the Explorer cluster via the terminal and Open OnDemand (OOD) Website. Learn how to transfer files, submit jobs, check job status, and work interactively on the OOD. Serena Caplins, PhD Associate Bioinformatician, Research Computing Serena has extensive experience with non-model organism genomics, including de novo genome or transcriptome assembly, genome annotation, genome liftover,…
Includes introduction to HPC concepts, parallelization approaches (shared memory, distributed memory, data parallel), parallel computing libraries (OpenMP, MPI), and a data-parallel example using Slurm job arrays. Ghanghoon (Will) Paik, PhD HPC Performance Engineer Ghanghoon (Will) holds a PhD in Aerospace Engineering from Penn State University. With a background in high performance computing (HPC), he specializes…
This will cover running containers in srun, sbatch, on CPU and GPU, and will end with a brief description of building containers. Serena Caplins, PhD Associate Bioinformatician, Research Computing Serena has extensive experience with non-model organism genomics, including de novo genome or transcriptome assembly, genome annotation, genome liftover, variant calling, and population genetics. She is eager to help biologists with…