Scientific Computing and Data / High Performance Computing / Minerva HPC Presentations
Minerva HPC Presentations
Minerva User Group – Upcoming Training Sessions
Session 3: Load Sharing Facility (LSF) Job Scheduler – Wednesday, Oct. 9th, 12:30PM-1:30PM
Click here to register for LSF Job Scheduler Session
Click here to register for the in-person session
Location: Icahn School of Medicine building (1425 Madison Ave) Room L3-41
Remote attendance: Zoom link provided following registration
This session will cover:
• LSF introduction and basic/helpful LSF commands
• Dependent job
• Self-scheduler
• Parallel jobs (job arrays, parallel processing and GPUs)
• Things to avoid
Session 4: Introduction to GPU/AI resources on Minerva – Wednesday, Oct. 16th, 2024, 1 pm -2 pm
Click here to register for Introduction to GPU/AI resources on Minerva Session
Click here to register for the in-person session
Location: Icahn School of Medicine building (1425 Madison Ave) Room L3-41
Remote attendance: Zoom link provided following registration
This session will cover:
• What is a GPU
• GPU resources on Minerva
• User GPU/AI Software environnent on Minerva
• Running GPU/AI jobs in LSF
Session 5: Accelerating Biomedical Data Science with GPUs: Practical Approaches And Tools – Wednesday, Oct. 23, 2024, 12:30 pm-1:30 pm
Click here to register for Accelerating Biomedical Data Science with GPUs: Practical Approaches And Tools Session
Click here to register for the in-person session
Location: Icahn School of Medicine building (1425 Madison Ave) Room L3-41
This session will cover:
• GPU fundamentals
• Ways to accelerate with GPUs
• GPU-Accelerated Numerical Computing with CuPy
• GPU-Accelerated Data Science with RAPIDS
• Enhancing Numerical Computations with CuPy on GPU
Session 6: Leveraging Large Language Models in Biomedical Research – Wednesday, Oct. 30th, 2024, 1 pm -2 pm
Click here to register for Leveraging Large Language Models in Biomedical Research Session
Click here to register for the in-person session
Location: Icahn School of Medicine building (1425 Madison Ave) Room L3-41
This session will cover:
• Introduction to Large Language Models (LLMs)
• Transformer Architecture
• Key LLM Models
• Training and Fine-Tuning LLMs
• Practical Implementation on GPUs
Session 7: Access Minerva via web browser: Open OnDemand – Friday, November 1st, 1pm-2pm
Click here to register for Open OnDemand Session
Click here to register for the in-person session
Location: Icahn School of Medicine building (1425 Madison Ave) Room L14-84
Remote attendance: Zoom link provided following registration.
This session will cover the following and focus on live demonstration:
• Login via Open OnDemand
• File Access via Open OnDemand
• Submit jobs via Open OnDemand
• Access Interactive Apps within Open OnDemand: Desktop, Rstudio, Jupyter, Code Server, Matlab, SAS etc
Session 8: How to Accelerate Genome Analysis Toolkit (GATK) by using Parabricks – Wednesday, Nov. 6th, 2024, 1 pm-2 pm
Click here to register for How to Accelerate Genome Analysis Toolkit (GATK) by using Parabricks Session
Click here to register for the in-person session
Location: Icahn School of Medicine building (1425 Madison Ave) Room L3-41
This session will cover:
• Capabilities and Performance of Parabricks
• Parabricks for secondary analysis
Minerva User Group – Training Sessions
Computational Scientists in the Scientific Computing Facility provide both beginning and advanced training sessions on how to use Minerva effectively and efficiently. Times and location will be announced in advance in the Weekly Update email and posted on the Home page of this website. Our computational Scientists are also available by appointment or drop-in. Please see below for archived slides from past training sessions.
- October 4, 2024: Introduction to Minerva (powerpoint slides) (video recording)
Find slide presentations from past training sessions here.
Minerva User Group – Town Hall Meetings
The Minerva User Group (MUG) meets quarterly and on an as-needed basis to review computational and data usage statistics, and provide advice on operational policies and plans. All scientists and researchers who use Minerva are encouraged to participate; slides from the meetings are posted on the internal Scientific Computing Facility’s website as well as in the Minerva Weekly Update. Please see below for slides from recent meetings.
- April 2024 – Minerva Town Hall (powerpoint slides) (video recording)
- October 2023 – Minerva Town Hall (powerpoint slides) (video recording)
- May 2023 – Minerva Town Hall (powerpoint slides) (video recording)
- December 2022 – Minerva Town Hall (powerpoint slides) (video recording)
- April 2022 – Minerva Town Hall (powerpoint slides)
Find slide presentations from past Minerva User Group Meetings here.
Minerva User Satisfaction Survey
The Minerva User Satisfaction Survey is issued in Jan annually to collect your feedback.
- 2023 Minerva User Survey Results and Comment Feedback
- 2023 Minerva Job Scheduler User Survey Results
- 2022 Minerva User Survey Results and Comment Feedback
- 2022 Data Ark User Survey Results and Comment Feedback
- 2021 Data Ark User Survey Results and Comment Feedback
- 2021 Computational Genomics User Survey Results and Comment Feedback
- 2021 Minerva User Survey Results and Comment Feedback
Find past survey results here.
Archives
Past Training Sessions
- March 27, 2024: Introduction to Minerva (powerpoint slides) (video recording)
- April 3, 2024: Load Sharing Facility (LSF) Job Scheduler (powerpoint slides) (video recording)
- April 10, 2024: Introduction to GPU/AI resources on Minerva (powerpoint slides) (video recording)
- April 12, 2024: 5 Ways to Get Started with GPUs (powerpoint slides) (video recording)
- April 17, 2024: Accelerated General Data Science in Medicine with RAPIDS, CuPy and Numba (powerpoint slides) (video recording)
- May 1, 2024: How to Accelerate Genome Analysis Toolkit (GATK) by using Parabricks (powerpoint slides) (video recording)March 27, 2024: Introduction to Minerva (powerpoint slides) (video recording)
- April 3, 2024: Load Sharing Facility (LSF) Job Scheduler (powerpoint slides) (video recording)
- April 10, 2024: Introduction to GPU/AI resources on Minerva (powerpoint slides) (video recording)
- April 12, 2024: 5 Ways to Get Started with GPUs (powerpoint slides) (video recording)
- April 17, 2024: Accelerated General Data Science in Medicine with RAPIDS, CuPy and Numba (powerpoint slides) (video recording)
- May 1, 2024: How to Accelerate Genome Analysis Toolkit (GATK) by using Parabricks (powerpoint slides) (video recording)
- September 27, 2023: Introduction to Minerva (powerpoint slides) (video recording)
- October 11, 2023: Open OnDemand (powerpoint slides) (video recording)
- October 4, 2023: Load Sharing Facility (LSF) Job Scheduler (powerpoint slides) (video recording)
- April 5, 2023: Running Jupyter Notebook and RStudio on Minerva (powerpoint slides) (video recording)
- March 29, 2023: Load Sharing Facility (LSF) Job Scheduler (powerpoint slides) (video recording)
- March 22, 2023: Introduction to Minerva (powerpoint slides) (video recording)
- October 7, 2022: Containerized Environment on Minerva (powerpoint slides) (video recording)
- September 21, 2022: Introduction to Minerva (powerpoint slides) (video recording)
- September 30, 2022: Load Sharing Facility (LSF) Job Scheduler (powerpoint slides) (video recording)
- April 1, 2022: Introduction to Minerva (powerpoint slides) (video recording)
- April 8, 2022: LSF Job Scheduler (powerpoint slides) (video recording)
- September 15, 2021: Introduction to Minerva
- September 22, 2021: LSF Job Scheduler
- September 2021 Trainings: Video Recordings
- April 30, 2021:Singularity Containers
- April 23, 2021: LSF Training
- April 16, 2021: Minerva Basics Training
- April 9, 2021:Minerva HPI-MS Training
- September 23, 2020: LSF Job Scheduler
- September 16, 2020: Introduction to Minerva
- April 18, 2020: LSF Job Scheduler
- April 11, 2020: Minerva Basic Training
- September 18, 2019: Chimera Training
- April 9, 2019: Chimera Training
- September 26, 2018: Advanced LSF Training
Past Minerva User Group Meetings
- December 2021: Minerva Town Hall 2021
- December 2020: MUG Meeting Minerva Town Hall 2020
- December 16, 2020: Minerva Town Hall 2020
- November 14, 2019: Minerva User Group Meeting
- April 1, 2019: Minerva User Group Meeting
- November 29, 2018: Minerva User Group Meeting
- January 18, 2018: Minerva User Group Meeting
- September 26, 2017: Minerva User Group Meeting