Agenda is subject to change. Times listed below are in Pacific.
Lesson material: https://github.com/ciml-org/ciml-summer-institute-2021
Friday, June 18 – Preparation Day
| 9:00 AM - 9:20 AM | 1.1. Welcome & Orientation Mary Thomas, Computational Data Scientist & Director of the CIML Summer Institute |
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| 9:20 AM – 9:40 AM | 1.2 Accounts, Login, Environment, Running Jobs Mary Thomas, Computational Data Scientist & Director of the CIML Summer Institute |
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| 9:50 AM – 10:10 AM | 1.3 Running Secure Jupyter Notebooks on Expanse Marty Kandes, Computational and Data Science Research Specialist |
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10:10 AM – 10:30 AM |
1.4 Installing miniconda, Running Jupyter Notebooks Peter Rose, Director of Structural Bioinformatics Laboratory |
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| 10:30 AM – 10:50 AM | 1.5 Interactive Services Using the Expanse User Portal Marty Kandes, Computational and Data Science Research Specialist & Subhashini Sivagnanam, Senior Computational and Data Science Specialist |
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| 10:50 AM - 11:00 AM | Q&A, Wrap-up | |
Tuesday, June 22 - Cyberinfrastructure & HPC
| 8:00 AM - 9:00 AM | 2.1 Welcome, Orientation, & Introductions Mary Thomas, Computational Data Scientist & Director of the CIML Summer Institute |
| 9:00 AM – 9:40 AM | 2.2 Introduction HPC/Cyberinfrastructure Robert Sinkovits, Director for Scientific Computing Applications |
| 9:40 AM – 10:20 AM |
2.3 CPU Computing - Hardware, architecture, and software infrastructure Mary Thomas, Computational Data Scientist & Director of the CIML Summer Institute |
| 10:20 AM – 11:00 AM |
2.4 GPU Computing - Hardware architecture and software infrastructure Andreas Goetz, Research Scientist & Principal Investigator |
| 11:00 AM – 11:45 AM - Break/Lunch | |
| 11:45 PM – 12:25 PM |
2.5 Data Management and File Systems |
| 12:25 PM – 1:05 PM |
2.6 Introduction to Singularity: Containers for Scientific and High-Performance Computing Marty Kandes, Computational and Data Science Research Specialist |
| 1:05 PM – 1:35 PM | 2.7 Reproducibility in Science and Machine Learning Peter Rose, Director of Structural Bioinformatics Laboratory |
| 1:35 PM – 2:00 PM | Q&A, Wrap-up |
Wednesday, June 23 - Scalable Machine Learning
| 8:00 AM – 8:30 AM | 3.1 Machine Learning (ML) Overview
Mai Nguyen, Lead for Data Analytics |
| 8:30 AM – 9:15 AM | 3.2 R on High-Performance Computing (HPC) Paul Rodriguez, Research Analyst |
| 9:15 AM – 9:30 AM - Break | |
| 9:30 AM – 10:45 AM | 3.3 Spark Mai Nguyen, Lead for Data Analytics |
| 10:45 AM – 11:45 PM - Break/ Lunch | |
| 11:45 AM – 12:30 PM |
3.4 Intro to NN/CNN Paul Rodriguez, Research Analyst |
| 12:30 PM - 12:45 PM - Break | |
| 12:45 PM - 1:45 PM | 3.5 Deep Learning Mai Nguyen, Lead for Data Analytics |
| 1:45 PM – 2:00 PM | Q&A, Wrap-up |
Thursday, June 24 - Machine Learning Hands-on
| 8:00 AM - 8:45 AM | 4.1 Writing and Sharing Computational Analyses in Jupyter Notebooks Peter Rose, Director of Structural Bioinformatics Laboratory |
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| 8:45 AM – 9:45 AM |
4.2 Sparks Hands-on Mai Nguyen, Lead for Data Analytics & Paul Rodriguez, Research Analyst |
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| 9:45 AM - 10:00 AM - Break | ||
| 10:00 AM - 10:30 AM |
4.3 Continue Sparks Hands-on Mai Nguyen, Lead for Data Analytics & Paul Rodriguez, Research Analyst |
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| 10:30 AM - 11:00 AM |
4.4 Deep Learning Hands-on Mai Nguyen, Lead for Data Analytics & Paul Rodriguez, Research Analyst |
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| 11:00 AM – 12:00 PM - Break/Lunch | ||
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12:00 PM – 1:00 PM
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4.5 Deep Learning Transfer Learning Mai Nguyen, Lead for Data Analytics & Paul Rodriguez, Research Analyst |
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1:00 PM – 1:45 PM
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4.6 Deep Sequence Learning Mai Nguyen, Lead for Data Analytics & Paul Rodriguez, Research Analyst |
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| 1:45 PM – 2:00 PM | Q&A, Wrap-up | |