University of Cambridge Bioinformatics Training

We offer a broad range of undergraduate and postgraduate hands-on training courses focused on bioinformatics and computational biology. These training activities aim at enabling life scientists to effectively handle and interpret biological data.

University of Cambridge Bioinformatics Training https://tess.elixir-europe.org/content_providers/university-of-cambridge-bioinformatics-training We offer a broad range of undergraduate and postgraduate hands-on training courses focused on bioinformatics and computational biology. These training activities aim at enabling life scientists to effectively handle and interpret biological data. /system/content_providers/images/000/000/057/original/logo.png?1477998653
Showing 4 materials.
Data Carpentry in R

Data Carpentry workshops are for any researcher who has data they want to analyze, and no prior computational experience is required. This hands-on workshop teaches basic concepts, skills and tools for working more effectively with data. We will cover Data organization in spreadsheets, data...

Keywords: Data analysis, Data carpentry, SoftwareCarpentry

Resource type: course materials

Data Carpentry in R https://tess.elixir-europe.org/materials/data-carpentry-in-r Data Carpentry workshops are for any researcher who has data they want to analyze, and no prior computational experience is required. This hands-on workshop teaches basic concepts, skills and tools for working more effectively with data. We will cover Data organization in spreadsheets, data cleaning with OpenRefine, and learn how to use the statistical program R. If time allows we will also talk about Interacting with databases from R. Participants will be encouraged to help one another and to apply what they have learned to their own research problems Data analysis, Data carpentry, SoftwareCarpentry Anyone
Summer School 2018 TrainMalta: Epigenomics. Introduction to Unix and R

An overview of Unix and R for bioinformatics

Keywords: Unix, R-programming

Resource type: Training materials

Summer School 2018 TrainMalta: Epigenomics. Introduction to Unix and R https://tess.elixir-europe.org/materials/summer-school-2018-trainmalta-epigenomics-introduction-to-unix-and-r An overview of Unix and R for bioinformatics Luigi Grassi Unix, R-programming PhD students Life Science Researchers
Beginners introduction to Git and GitHub

__Morning session__ (Sergio and Mark) https://tinyurl.com/git-intro-zoology: - Background and motivation - What is version control? What is Git? What is GitHub? - How can you use Git and GitHub? How can they be useful for you? - Practical session: working with Git and GitHub __Afternoon...

Keywords: Git, GitHub, control version, Reproducibility

Resource type: Training materials

Beginners introduction to Git and GitHub https://tess.elixir-europe.org/materials/beginners-introduction-to-git-and-github __Morning session__ (Sergio and Mark) https://tinyurl.com/git-intro-zoology: - Background and motivation - What is version control? What is Git? What is GitHub? - How can you use Git and GitHub? How can they be useful for you? - Practical session: working with Git and GitHub __Afternoon session__ (Mark and Anne) https://tinyurl.com/git-course: markdown, pages and wikis; creating good README files; issue tracking; sofware licenses Mark Fernandes pajanne Git, GitHub, control version, Reproducibility Researchers
Introduction to GitHub

The aim for today is to learn the basics of GitHub so that you can use it for your own projects. - Background - What is version control? What is Git? What is GitHub? - How can you use GitHub? How can it be useful for your work? - Practical session: working with GitHub

Keywords: GitHub, Reproducibility

Resource type: Training materials

Introduction to GitHub https://tess.elixir-europe.org/materials/introduction-to-github The aim for today is to learn the basics of GitHub so that you can use it for your own projects. - Background - What is version control? What is Git? What is GitHub? - How can you use GitHub? How can it be useful for your work? - Practical session: working with GitHub Gabriella Rustici GitHub, Reproducibility Senior Managers
Showing 7 upcoming events. Found 514 past events. View all results.
  • Reproducible Research with R (ONLINE LIVE TRAINING)

    20 June 2022

    Cambridge, United Kingdom

    Elixir node event
    Reproducible Research with R (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/reproducible-research-with-r-online-live-training-f5c6b5ba-52df-4afd-b3fb-c828d022d030 This course introduces concepts about reproducibility that can be used when you are programming in R. We will explore how to create notebooks - a way to integrate your R analyses into reports using Rmarkdown. The course also introduces the concept of version control. We will learn how to create a repository on GitHub and how to work together on the same project collaboratively without creating conflicting versions of files. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=4283511&course-title=Reproducible%20Research%20with%20R).'' 2022-06-20 08:30:00 UTC 2022-06-20 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Analysis of single cell RNA-seq data (ONLINE LIVE TRAINING)

    17 June - 1 July 2022

    Cambridge, United Kingdom

    Elixir node event
    Analysis of single cell RNA-seq data (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/analysis-of-single-cell-rna-seq-data-online-live-training-b8ef1f2a-776d-42f4-a490-f018700ae7ba 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 also more challenging. In this course we will be surveying the existing problems as well as the available computational and statistical frameworks available for the analysis of scRNA-seq. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=4306409&&course-title=Analysis%20of%20single%20cell%20RNA-seq%20data).'' 2022-06-17 08:30:00 UTC 2022-07-01 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Transcriptomics Functional genomics Data visualisation Data mining Bioinformatics University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Introduction to R for Biologists (ONLINE LIVE TRAINING)

    15 - 23 June 2022

    Cambridge, United Kingdom

    Elixir node event
    Introduction to R for Biologists (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/introduction-to-r-for-biologists-online-live-training-c59887f9-3eb5-49fd-a124-dee8194ac81a R is one of the leading programming languages in Data Science. It is widely used to perform statistics, machine learning, visualisations and data analyses. It is an open source programming language so all the software we will use in the course is free. This course is an introduction to R designed for participants with no programming experience. We will start from scratch by introducing how to start programming in R and progress our way and learn how to read and write to files, manipulate data and visualise it by creating different plots - all the fundamental tasks you need to get you started analysing your data. During the course we will be working with one of the most popular packages in R; tidyverse that will allow you to manipulate your data effectively and visualise it to a publication level standard. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=4178900&course-title=Introduction%20to%20R%20for%20Biologists).'' 2022-06-15 08:30:00 UTC 2022-06-23 12:00:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Introduction to working with UNIX and bash (ONLINE LIVE TRAINING)

    6 - 7 July 2022

    Cambridge, United Kingdom

    Elixir node event
    Introduction to working with UNIX and bash (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/introduction-to-working-with-unix-and-bash-online-live-training-b013c4ea-fc73-42d1-9ac5-b11435801e1b PLEASE NOTE The Bioinformatics Team are presently teaching many courses live online, with tutors available to help you work through the course material on a personal copy of the course environment. We continue to monitor advice from the UK government and the University of Cambridge on resuming in-person teaching back in the training room. Using the Linux operating system and the bash command line interface, we will demonstrate the basic structure of the UNIX operating system and how we can interact with it using a basic set of commands. Applying this, we will learn how to navigate the filesystem, manipulate text-based data and structure simple pipelines out of these commands. Building on the techniques learnt so far, we will then construct bash scripts combining the commands and structures already learnt into more complex, reusable tools. We will look at how we can apply these scripts to common problems faced in UNIX environments such as: communicating with remote servers; managing custom software installations and integrating these tools into our simple pipelines. This course is targeted at participants with no prior experience working with UNIX-like systems (OSX, Linux) or command line interfaces. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to Book or register Interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=4316938&course-title=Introduction%20to%20working%20with%20Unix%20and%20bash).'' 2022-07-06 13:00:00 UTC 2022-07-07 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • High Performance Computing: An Introduction (ONLINE LIVE TRAINING)

    13 - 14 July 2022

    Cambridge, United Kingdom

    Elixir node event
    High Performance Computing: An Introduction (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/high-performance-computing-an-introduction-online-live-training-2e94ddaf-6071-4664-9d5d-619b49b20888 PLEASE NOTE The Bioinformatics Team are presently teaching many courses live online, with tutors available to help you work through the course material on a personal copy of the course environment. We continue to monitor advice from the UK government and the University of Cambridge on resuming in-person teaching back in the training room. Have you heard about High Performance Computing, but are not sure what it is or whether it is relevant for your work? Would you like to use a HPC, but are not sure where to start? Are you using your personal computer to run computationally demanding tasks, which take long and slow down your work? Do you need to use software that runs on Linux, but don't have access to a Linux computer? If any of these questions apply to you, then this course might be for you! Knowing how to work on a High Performance Computing system is an essential skill for applications such as bioinformatics, big-data analysis, image processing, machine learning, parallelising tasks, and other high-throughput applications. In this course we will cover the basics of High Performance Computing, what it is and how you can use it in practice. This is a hands-on workshop, which should be accessible to researchers from a range of backgrounds and offering several opportunities to practice the skills we learn along the way. As an optional session for those interested, we will also introduce the (free) HPC facilities available at Cambridge University (the course is not otherwise Cambridge-specific). Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=4316957&course-title=High%20Performance%20Computing:%20An%20Introduction).'' 2022-07-13 13:00:00 UTC 2022-07-14 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR University of Cambridge Bioinformatics Training [] This course is aimed at students and researchers of any background.We assume no prior knowledge of what a HPC is or how to use it.It may be particularly useful for those who have attended other Facility Courses and now need to process their data on a Linux server. It will also benefit those who find themselves using their personal computers to run computationally demanding analysis/simulations and would like to learn how to adapt these to run on a HPC.Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • EMBL-EBI: Network Analysis with Cytoscape (Online)

    20 - 21 June 2022

    Cambridge, United Kingdom

    Elixir node event
    EMBL-EBI: Network Analysis with Cytoscape (Online) https://tess.elixir-europe.org/events/embl-ebi-network-analysis-with-cytoscape-online-b82c9960-d4ec-4b28-bd6c-c6e413c587cf This course provides an introduction to the basic theory and concepts of network analysis. Attendees will learn how to construct protein-protein interaction networks and subsequently use these to overlay large-scale data such as that obtained through RNA-Seq or mass-spec proteomics. The course will focus on giving attendees hands-on experience in the use of one of the most commonly used open source Network Visualisation Platforms, [Cytoscape](https://cytoscape.org/what_is_cytoscape.html). The course will also access and analyse the data through Cytoscape apps, including IntAct app. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=4306738&course-title=EMBL-EBI:%20Network%20Analysis%20with%20Cytoscape).'' 2022-06-20 08:30:00 UTC 2022-06-21 12:00:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Bioinformatics University of Cambridge Bioinformatics Training [] This workshop is aimed at researchers interested in proteinsnetwork analysisprotein-protein interactions and related areasBiologists and bioinformaticiansGraduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Core Statistics using R (ONLINE LIVE TRAINING)

    29 June - 14 July 2022

    Cambridge, United Kingdom

    Elixir node event
    Core Statistics using R (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/core-statistics-using-r-online-live-training-1bdf4c7a-2283-4160-b3e3-4a8e7385502d This [award winning](https://www.cctl.cam.ac.uk/teaching-prizes/tel-prize/2020) virtually delivered course is intended to provide a strong foundation in practical statistics and data analysis using the R software environment. The underlying philosophy of the course is to treat statistics as a practical skill rather than as a theoretical subject and as such the course focuses on methods for addressing real-life issues in the biological sciences. There are three core goals for this course: # Use R confidently for statistics and data analysis # Be able to analyse datasets using standard statistical techniques # Know which tests are and are not appropriate R is an open source programming language so all of the software we will use in the course is free. In this course, we explore classical statistical analysis techniques starting with simple hypothesis testing and building up to linear models and power analyses. The focus of the course is on practical implementation of these techniques and developing robust statistical analysis skills rather than on the underlying statistical theory. After the course you should feel confident to be able to select and implement common statistical techniques using R and moreover know when, and when not, to apply these techniques. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=4180988&course-title=Core%20Statistics%20using%20R).'' 2022-06-29 08:30:00 UTC 2022-07-14 12:00:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsThis course is included as part of several DTP and MPhil programmesas well as other departmental training within the University of Cambridge (potentially under a different name) so participants who have attended statistics training elsewhere should check before applying. workshops_and_courses [] HDRUK