June,2024 |
3 Jun 9:00 am 12:00 pmThis course provides you with essential knowledge and skills to effectively prepare data for analysis. Starting with an overview of the Data Analytics pipeline and processes, the course explores various statistical and visualization techniques used in Exploratory and Descriptive Analytics to understand historical data. You will then delve into the art of Data Preparation, gaining expertise in data cleaning, handling missing values, detecting, and handling outliers, as well as transforming and engineering features. By the end of the course, you will be equipped with the necessary tools to ensure data quality and integrity, enabling you to make informed decisions and derive valuable insights from their data. Level: Introductory Length: 3 Hours Format: Lecture + Hands-on Prerequisites: Basic Python (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
3 Jun 9:00 am 12:00 pmRunning programs on the supercomputers is done via the BASH shell. This course is two three hour live demos on using bash. No prior familiarity with bash is assumed. In addition to the basics of getting around, globbing, regular expressions, redirection, pipes, and scripting will be covered. A series of exercises are required to be done in order to complete the course. Level: Introductory Length: Two 3-Hour Sessions Format: Lecture + Hands-on Prerequisites: None (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
3 Jun 1:30 pm 4:30 pmBe aware. Stay secure. Join us to learn more about the tools you can use to prevent the theft of your data and possibly of your identity. Other topics of discussion will include common hacking attempts, how to recognize them, and how to avoid having your data compromised, stolen, or destroyed. We will also talk about data encryption and provide tips for when travelling with electronic devices. Level: Introductory Length: 3 hours Format: Lecture Prerequisites: None (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
3 Jun 1:30 pm 4:30 pmRunning programs on the supercomputers is done via the BASH shell. This course is two three hour live demos on using bash. No prior familiarity with bash is assumed. In addition to the basics of getting around, globbing, regular expressions, redirection, pipes, and scripting will be covered. A series of exercises are required to be done in order to complete the course. Level: Introductory Length: Two 3-Hour Sessions Format: Lecture + Hands-on Prerequisites: None (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
4 Jun 9:00 am 12:00 pmRNA-Seq refers to high throughput sequencing methods that probes the entire transcriptomic landscape of a given tissue or sample of interest. The data acquired from such experiments can be used to explore the overall RNA profile of a sample as well as comparing samples under various conditions. While extremely powerful, RNA-Seq is susceptible to numerous experimental pitfalls and requires intimate knowledge of the experimental procedures and data analysis methods. When conducted properly RNA-Seq can reveal information about gene/transcript expression, splicing and the effects of mutations. In this session we will take a thorough look at a comprehensive RNA-Seq pipeline, from sample processing methods to final differential expression analysis. Relevant R / BioConductor packages will be introduced. We will have the opportunity to investigate numerous quality control metrics, perform genomic alignment, differential expression and pathway enrichment analysis. We will cover several “gotcha”s and common mistakes in experimental design and data analysis. Basic familiarity with R and Linux command line will be beneficial but not required. All necessary commands and parameters will be explained during the class. Participants will be offered hands-on practice in which they will use RStudio to run R/BioConductor scripts for data analysis as well as the Integrative Genomic Viewer (IGV) software to visualize genomic data on their laptops Level: Intermediate Length: 3 Hours Format: Lecture + Hands-on Prerequisites: Basic R and Linux beneficial but not required (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
4 Jun 9:00 am 12:00 pmThis workshop is a primer for those largely new to supercomputing, i.e., to computing on shared, remote resources. It is intended to demystify the somewhat intimidating term "High-Performance Computing" (HPC), and to serve as a foundation upon which to build over the coming days. Topics will include motivation for HPC, available resources, essential issues, and a high level overview of parallel programming models commonly used on these systems. Level: Introductory Length: 3 Hours Format: Lecture + Hands-on Prerequisites: Basic Linux e.g. "Introduction to Linux Shell" (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
6 Jun 3:00 pm 4:20 pmLong-read sequencing technologies enable the sequencing of DNA fragments 10KB and longer. This read length greatly improves sequence mappability and assembly, providing an advantage over short-read sequences that are difficult to map uniquely to repetitive and GC-rich regions. Long-read sequencing has applications in a number of fields including genome assembly, diagnosis of genetic diseases, and metagenomics. In this workshop, we will focus on PacBio HiFi sequences and introduce you to tools for haplotyping, calling and visualizing structural variants and repeat expansions, visualizing read methylation, and detecting novel isoforms from PacBio Iso-Seq data. Participants will be offered hands-on practice in which they will use RStudio to run R/BioConductor scripts for data analysis as well as the Integrative Genomic Viewer (IGV) software to visualize genomic data on their laptops Level: Intermediate Length: 3 Hours Format: Lecture + Hands-on Prerequisites: Basic R (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
7 Jun 9:00 am 12:00 pmThis course will provide hands-on experience on fundamental concepts of programming using C. This will include Conditional statement, Loops(while and for), Arrays, Pointers, Functions and Dynamic memory allocation. An introduction will be provided regarding fundamental data structures such as linked list, stacks, queues and binary trees. Level: Introductory Length: Two 3-Hour Sessions Format: Lecture + Hands-on Prerequisites: None (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
7 Jun 9:00 am 10:20 amThe application of machine learning (ML) to academic libraries promises to be transformational. A Task Force of the Ontario Council of University Libraries (OCUL) has been exploring this technology and identifying specific ML use cases. OCUL is an association of the 21 university libraries in Ontario who collaborate on many shared services and resources. This session will review the work of the Task Force with a focus on use cases, and the requirements and processes to implement pilot programs and production services. Particular attention will be placed on the technology infrastructure (compute, software) and the expertise requirements (technology, domain). Use cases to be discussed include audio to text transcription, metadata creation, virtual reference (chat), and discovery using natural language processing (NLP), semantic search, and summarization. The discovery use case will be applied to some of the extensive data collections maintained by Scholar Portal, the shared resource managed by OCUL, including over 65 million articles from over 27,000 full text scholarly journals and a collection of over 800K digital books and government documents. Participants will be encouraged to engage with key questions about the adoption and use of machine learning in libraries and to provide feedback on the ongoing evolution of this technology as it benefits library applications. Level: Introductory Length: 1.5 Hours Format: Lecture Prerequisites: None (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
7 Jun 1:30 pm 4:30 pmThis course will provide hands-on experience on fundamental concepts of programming using C. This will include Conditional statement, Loops(while and for), Arrays, Pointers, Functions and Dynamic memory allocation. An introduction will be provided regarding fundamental data structures such as linked list, stacks, queues and binary trees. Level: Introductory Length: Two 3-Hour Sessions Format: Lecture + Hands-on Prerequisites: None (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
7 Jun 1:30 pm 2:50 pmJupyter Notebook is commonly used for interactive computing in Python. This session provides the options and features for working with Jupyter on the Digital Research Alliance of Canada's remote computing clusters and demonstrates several use case examples on the clusters. Level: Introductory Length: 1.5 Hours Format: Lecture + Demonstration Prerequisites: Basic Python and Linux command line experience. (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
7 Jun 3:00 pm 4:20 pmOdesi (odesi.ca) is a Canadian social science data repository and online data exploration and analysis tool. Odesi’s collections include over 5,700 historical and contemporary surveys and public opinion polls from a variety of data providers such as Statistics Canada and the Canadian Opinion Research Archive (CORA). This workshop will demonstrate how to effectively search for and access data within Odesi on a variety of social, economic, and political topics. Attendees will learn how to navigate the interface, using search features and available collections, explore survey questions (variables), perform basic tabulations and analysis using connected tools, and download datasets into statistical software (e.g. R, SPSS) for further analysis. Level: Introductory Length: 1.5 Hours Format: Lecture Prerequisites: None (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
10 Jun 9:00 am 12:00 pmSome popular Python libraries for data analytics, like Numpy, Pandas, Scikit-Learn, etc., usually work well if the dataset fits into the RAM on a single machine. When dealing with large datasets, it could be a challenge to work around memory constraints. This course introduces scalable and accelerated data analytics with Dask and RAPIDS. Dask provides a framework and libraries that can handle large datasets on a single multi-core machine or across multiple machines on a cluster. RAPIDS, on the other hand, can accelerate your data analytics by offloading analytics workloads to GPUs with less effort in code changes. Level: Introductory Length: Two 3-Hour Sessions (2 Days) Format: Lecture + Hands-on Prerequisites: Alliance Account Basic Python and Linux command line experience. (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
10 Jun 9:00 am 12:00 pmThis workshop introduces the topic of text mining and its applications. It covers different encoding mechanisms to convert text into numbers that algorithms can handle. It gives an overview of different text mining tasks, including de-identification, sentiment analysis and document clustering, and how they work with examples and live demos. There will also be references to state-of-the-art tools and libraries to conduct various text mining tasks. Level: Introductory Length: 3 Hours Format: Lecture + Hands-on Prerequisites: Basic Python (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
10 Jun 1:30 pm 4:30 pmThis course is intended to help learners with a basic understanding of fluid dynamics and CFD bridge the knowledge gap towards the effective utilization of CFD on modern HPC architectures. This course will take an end-user approach to CFD tools on HPC systems (no coding) and, despite some prerequisites, will be given at an introductory/intermediate level (we will not cover advanced topics such as GPU or dynamic load-balancing). At the end of the course, the learner will be able to: Develop a systematic approach to estimate the HPC cost of a CFD problem. Explain the impact of modelling assumptions on HPC cost. Optimize the parameters and simulations for effective HPC usage. The course will use an entirely open source suite of CFD toolsets to mesh (Gmsh), simulate (OpenFoam/SU2), and visualize (Visit/Paraview). It should be noted that this is not a CFD course; therefore, undergraduate-level knowledge of CFD and numerical methods is expected, as well as a basic understanding of the Compute Ontario HPC system. The focus is on the effective use of CFD tools in modern HPC systems. Level: Intermediate, Length: Three 1-Hour Sessions (3 Days), Format: Lecture + Hands-on, Prerequisites: Undergraduate-level knowledge of fluid dynamics (ideally with some knowledge of turbulence), CFD, and numerical methods. (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
10 Jun 1:30 pm 4:30 pmHave you ever tried to run someone else’s code and it just didn’t work? Have you ever been lost interpreting your colleague’s data? This hands-on session will provide researchers with tools and techniques to make their research process more transparent and reusable in remote computing environments. You’ll be using platforms like JupyterHub and command-line tools like Bash and Docker in a Linux environment to interact with the material through various exercises and examples. In this workshop, you’ll learn about: organizing your file directories writing readable metadata with README files automating your workflow with scripts capture and share your computational environment Level: Introductory Length: 3 hours Format: Lecture + Hands-on Prerequisites: Initial familiarity with command line tools and/or a Linux environment may be beneficial but not mandatory (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
11 Jun 9:00 am 12:00 pmThis course provides an introduction to machine learning that enables computers to learn AI models from data without being explicitly programmed. It comprises two parts: Part I covers the fundamentals of machine learning, and, Part II demonstrates the applications of various machine methods in solving a real world problem. Rather than presenting the key concepts and components of machine learning in an abstract way, this course introduces them with a small number of examples. By using plotting and animations, insight into some of the mechanics of machine learning can be had. Furthermore, the student will gain practical skills in a case study, in which each step of developing a machine learning project is presented. By the end of this course, the student will have a solid understanding and experience with some of the fundamentals of machine learning enabling subsequent exploration. Level: Introductory to Intermediate Length: Two 3-Hour Sessions Format: Lecture + Hands-on Prerequisites: Alliance Account Data preparation or equivalent knowledge. Basic Python knowledge and experience. Knowledge and experience with Tensorflow and Scikit-learn would also be helpful. (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
11 Jun 9:00 am 12:00 pmThis is an introduction to the intermediate level OpenMP hand-on course. OpenMP is a standard parallel programming API that supports multi-platform shared-memory multiprocessing programming in C, C++, and Fortran. This one-day course will cover the principles of OpenMP compiler directives, library routines, and environment variables with step-by-step hand-on examples. Case studies include various approaches for loop parallelism. We will also talk about the Task constructs for irregular programs, and the Target constructs for accelerators such as GPU. Participants will have hand-on programming experience with OpenMP as well as how to compile and run Multi-thread OpenMP code on different alliance clusters. Level: Introductory Length: Two 3-Hour Sessions Format: Lecture + Hands-on (Hands-on portion is CPU only.) Prerequisites: Basic knowledge of C, C++, or Fortran (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
11 Jun 1:30 pm 4:30 pmThis is an introduction to the intermediate level OpenMP hand-on course. OpenMP is a standard parallel programming API that supports multi-platform shared-memory multiprocessing programming in C, C++, and Fortran. This one-day course will cover the principles of OpenMP compiler directives, library routines, and environment variables with step-by-step hand-on examples. Case studies include various approaches for loop parallelism. We will also talk about the Task constructs for irregular programs, and the Target constructs for accelerators such as GPU. Participants will have hand-on programming experience with OpenMP as well as how to compile and run Multi-thread OpenMP code on different alliance clusters. Level: Introductory Length: Two 3-Hour Sessions Format: Lecture + Hands-on (Hands-on portion is CPU only.) Prerequisites: Basic knowledge of C, C++, or Fortran (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |
11 Jun 1:30 pm 4:30 pmThis course provides an introduction to machine learning that enables computers to learn AI models from data without being explicitly programmed. It comprises two parts: Part I covers the fundamentals of machine learning, and, Part II demonstrates the applications of various machine methods in solving a real world problem. Rather than presenting the key concepts and components of machine learning in an abstract way, this course introduces them with a small number of examples. By using plotting and animations, insight into some of the mechanics of machine learning can be had. Furthermore, the student will gain practical skills in a case study, in which each step of developing a machine learning project is presented. By the end of this course, the student will have a solid understanding and experience with some of the fundamentals of machine learning enabling subsequent exploration. Level: Introductory to Intermediate Length: Two 3-Hour Sessions Format: Lecture + Hands-on Prerequisites: Alliance Account Data preparation or equivalent knowledge. Basic Python knowledge and experience. Knowledge and experience with Tensorflow and Scikit-learn would also be helpful. (part of the 2024 Compute Ontario Summer School) Virtual | COSS2024![Show in Google map](https://www.scinethpc.ca/wp-content/plugins/amr-ical-events-list/images/map_16.png) |