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Current Training Schedule: Spring 2024
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Please note the location for your selected class. We are offering both in-person and virtual classes this year. Important note: for virtual classes, you should receive an confirmation email from the Harvard Training Portal with a Zoom link. If you do not have your email address on file in the Training Portal, such messages cannot be sent to you. Please contact us for the Zoom meeting details if you do not get a confirmation email. |
Class | Date | Time | Location | Training Materials | Registration |
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Intro to O2 | Wednesday, |
February 21, |
2024 | 10am to 12pm |
In-person |
O2 Portal - Simplifying the Interaction and Experience of Using an HPC Environment | Wednesday, |
March 6, |
2024 | 10am to 12pm | Virtual |
Intro to MATLAB | Wednesday, |
March 13, |
2024 | 10am to 12pm | In-person |
Intro to Parallel Computing | Wednesday, |
March 20, |
2024 | 10am to 12pm | In-person |
Optimizing O2 Jobs | Wednesday, |
April 3, |
2024 | 10am to 12pm | In-person |
Intro to Python | Wednesday, |
April 10, |
2024 | 10am to 12pm | In-person |
Troubleshooting O2 Jobs | Wednesday, |
April 24, |
2024 | 10am to 12pm |
Virtual |
Intro to O2 | Wednesday, |
May 1, |
2024 | 10am to 12pm |
Virtual |
Medical Image Processing and Machine Learning Workflow (Taught by Mathworks) | Wednesday, |
May 15, |
2024 | 10am to 12pm |
Virtual
O2 Portal - Simplifying the Interaction and Experience of Using an HPC Environment
In-person | ||||
RCBio: easy and quick HPC pipeline builder & runner | Wednesday, May 22, 2024 | 10am to 12pm | Virtual |
Additional classes will be added for the Spring Summer semester.
Class Registration Process
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RCBio is a HPC pipeline runner and workflow tool supported by HMS RC consultants. It was first designed for a Neubiology lab and later opened to all O2 users. RCBio helps users to quickly build and run multiple steps data analysis pipeline on a computer cluster. RCBio automatically keeps logs on all job status and use email to notify user. When re-run the same pipeline, RCBio automatically submit failed jobs and ask user if she/he want to re-run the successful jobs. Here is our wiki page about the RCBio project: RC workflows |
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The “Troubleshooting O2 Jobs” class will teach you how to debug problems when running analyses on the O2 High Performance Compute Cluster. We will examine faulty job submissions to give you hands-on problem solving experience. You will learn how to request appropriate resources and set up your environment to successfully execute your jobs. Prerequisites: We recommend taking the “Intro to O2” class prior to “Troubleshooting O2 Jobs”. |
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Description: During this short training seminar, we will discuss:
Audience: Primarily focused on HMS related tools and materials. Open to members of the Longwood Medical Area community, including researchers, faculty and staff. Prerequisites: None |
Classes sponsored by HMS Research Computing but taught by our partner organizations:
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Overview Medical images are obtained from various sources including MRI, CT, X-ray, ultrasound, and PET scans. Analyzing these images necessitates a comprehensive environment for data access, visualization, processing, and algorithm development. A key challenge involves extracting quantitative features to generate clinically relevant information using advanced techniques like machine learning algorithms. This presentation will explore radiomics, which captures characteristics not typically visible. Radiomics features can be employed across various medical imaging modalities and applications, enabling the study of associations between imaging features and patient biology, as well as the prediction of clinical outcomes, making radiomics a versatile technique in medical imaging. These features quantify shape, intensity, and texture characteristics within medical images, reducing reliance on subjective interpretation for clinical workflows. Highlights In this session, you will learn how to:
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Academic Software Platform (ASP) integrates two major stacks of scientific software: BioGrids stack of ~400 biomedical applications (https://biogrids.org/software/) as well as SBGrid stack of ~500 structural biology applications. Multiple versions of applications are maintained, and users can also easily install the same stack of software on laptops, research workstations or cloud resources, under Linux or Mac OS X operating systems. More information about this resource is available on O2 wiki: https://harvardmed.atlassian.net/wiki/spaces/O2/pages/1630994700/Using+Software+Provided+by+BioGrids |
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MATLAB Parallel Server™ lets you scale MATLAB® programs and Simulink® simulations to clusters and clouds. This two-part, hands-on workshop is designed to introduce users to parallel computing constructs in MATLAB and to show them how they can scale their jobs to the HPC clusters on campus.
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Additional computational trainings
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available through other groups
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