Spatial transcriptomics is an emerging field that bridges molecular biology and anatomy. Over the last decade, a battery of assays have been developed that profile gene expression in-situ, i.e, measuring the abundances of mRNA molecules in cells and tissues while retaining information about their spatial locations. This workshop will introduce the basic concepts, major techniques, […]
This workshop aims to provide skills needed to address principles of the assay, quality assessment, sequencing depth, data processing and functional downstream analyses of ChIP-seq datasets. Students will have opportunities to practice hands-on with state-of-the-art analytical tools.
The analysis of imaging datasets is both exciting and challenging. New and increasingly powerful techniques try to maximize the information derived from multi-dimensional imaging datasets. Yet, every dataset can be a unique analysis challenge, and packages may not always work out-of-the-box. In this workshop, we will explore some popular computational tools to extract quantitative information […]
This 3-day interactive workshop introduces the overarching principles guiding generative modeling and specifically Large-Scale Language Models (LLM), their application in Python for inference, and specific use-cases in Genomics. Experience with Python is necessary, and basic knowledge about ML workflows is preferred. At the end of this workshop, you WILL be comfortable with loading, inferencing and […]
Learn how to make your applications ready for production and distribution. This workshop will give you your introduction to setting up version control and containerization for your applications to ensure that changes are tracked and dependencies are documented and automatically installed. Git and Docker allow developers and users to quickly replicate code and computing environments […]
RNA-seq I aims to provide an introduction and the basics tools to process raw RNA-seq data on a cluster machine (Hoffman2). The workshop can serve also as a starting point to develop a gene expression project. This workshop is divided in three days that will cover major steps of processing RNA-seq. To facilitate learning, the […]
This workshop aims to introduce the basic concepts and algorithms for single-cell RNA-seq analysis. It will help participants obtain a better idea of how to use scRNA-seq technology, from considerations in experimental design to data analysis and interpretation. This workshop can serve researchers who are interested in designing an scRNA-seq study or who have acquired […]
RNA-seq II aims to provide tools for analysis of gene expression data from read counts to biology using R. To facilitate learning, the workshop will use a real case study based approach appropriate for Illumina read data (same as RNA-seq I).
The UCLA ATLAS Precision Health Biobank integrates genetic information and de-identified medical records to enable precision health research. This introductory workshop will cover the basics of extracting health-related phenotypes from the electronic health record. Topics covered include introductory SQL, medical record concepts and organization, and best practices. No prior experience with SQL nor health records […]
