Specialized Training Courses

Description The aim of this course is to familiarize the participants with the primary analysis of RNA-seq data . This course starts with a brief introduction to RNA-seq and discusses quality control issues . Next, we will present the alignment step, quantification of expression and differential...

Description Recent technological advances have made it possible to obtain genome-wide transcriptome data from single cells using high-throughput sequencing (scRNA-seq). Even though scRNA-seq makes it possible to address problems that are intractable with bulk RNA-seq data, analysing scRNA-seq is...

Description This 1-week course aims to provide an introduction to the best practices and tools needed to perform bioinformatics research effectively and reproducibly. Focusing on solutions around handling biological data, we will cover introductory lessons in data manipulation and visualisation in...

Description The Biological Network Series c onsists of three webinars, each presented in the form of a 2-hour lecture as well as a tutorial with step-wise screenshots that enable listeners to emulate the subject at hand. Please note that these are webinars and not a coding exercises . LECTURE 1: An...

Description This course aims to familiarise biomedical students and researchers with principles of Data Science . Focusing on utilising machine learning algorithms to handle biomedical data , it will cover: effects of experimental design , data readiness , pipeline implementations , machine...

Description Modern technologies are able to deliver an unprecedented amount of data rapidly. However, without due care and attention early in the experimental process, such data are meaningless if they cannot adequately answer the intended research question. This course is aimed at those planning...

Description Many experimental designs end up producing lists of hits , usually based around genes or transcripts . Sometimes these lists are small enough that they can be examined individually, but often it is useful to do a more structured functional analysis to try to automatically determine any...

Description Machine learning gives computers the ability to learn without being explicitly programmed. It encompasses a broad range of approaches to data analysis with applicability across the biological sciences. Lectures will introduce commonly used algorithms and provide insight into their...

Description This two days course will focus on the theory and applications of metagenomics, for the analysis of complex microbiomes (microbial communities). The course will include theoretical (~40%) and practical (~60%) training. We will start with the fastest, simplest and cheapest amplicon based...

Description This event introduces participants to the KNIME Analytics Platform, an open source data science platform with a visual workflow editor, that can be used by users without prior programming experience or integrated with existing scripts written in R or Python. These sessions are aimed...

Description Ontologies have long provided a core foundation in the organization of biomedical entities , their attributes , and their relationships . With over 500 biomedical ontologies currently available there are a number of new and exciting opportunities emerging in using ontologies for large...

Description The course will teach intermediate R object-oriented programming and how to build a fully functional R package . Relevant teaching materials are available here and the sequences example package used as template in the course can be found here . Prerequisites A good knowledge of R and...

Description RNA-Seq technology has been transformative in our ability to explore gene content and gene expression in all realms of biology, and de novo transcriptome assembly has enabled opportunities to expand transcriptome analysis to non-model organisms. This course provides an overview of...

Description This workshop will focus on the core steps involved in calling germline short variants, somatic short variants, and copy number alterations with the Broad’s Genome Analysis Toolkit (GATK) , using “Best Practices” developed by the GATK methods development team. A team of methods...

Description Galaxy is an open, web-based platform for data intensive life science research that enables non-bioinformaticians to create, run, tune and share their own bioinformatic analyses. This introductory course will cover Galaxy's basic functionality, simple data manipulation and visualization...