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  • R for data science

    31 March - 3 April 2020

    Liverpool, United Kingdom

    R for data science https://tess.elixir-europe.org/events/r-for-data-science The course covered content for these learning objectives: To write your own custom functions To use for loops, apply functions and if statements To analyse large matrices of data in a semi-automated way To normalise data To quantify and correct batch effect To undertake the most common clustering algorithms including k-means and hierarchical To perform variable selection and present these results in different plots including heatmaps To do 2-way ANOVA To undertake multivariate modelling A brief introduction to machine learning. The course included brief theoretical introductions followed by hands on exercises based on real life research examples. 2020-03-31 09:00:00 UTC 2020-04-03 17:00:00 UTC Computational Biology Facility University of Liverpool, Liverpool, United Kingdom University of Liverpool Liverpool Merseyside United Kingdom L69 3GH Statistics and probability Bioinformatics University of Liverpool Computational Biology Facility (cbf@liverpool.ac.uk) [] [] 20 workshops_and_courses registration_of_interest R ProgrammingStatistical-model Statistics Pre-processingTranscriptomicsMetabolomicsProteomics
  • R for beginners

    1 - 3 April 2020

    Liverpool, United Kingdom

    R for beginners https://tess.elixir-europe.org/events/r-for-beginners R is a programming language and free software environment for statistical computing and graphics supported by the R Foundation for Statistical Computing. This course covers: Day 1: Foundations of R: get familiar with R, R studio, operators, variables, functions, directories and the script editor Day 2: Visualisation in basic R (boxplots, scatterplots, line graphs and histograms) and ggplot2 (same types of plots and also manipulation of data for use within this package as well as simple linear regression) Day 3: Introduction to statistical analyses in R: univariate statistics (choosing the right test, checking data assumptions, calculating and extracting the values to report in publications) and Principal Component Analysis (calculation and visualisation with ggplot2) Extra materials: Introduction to the Tidyverse, Introduction to for loops All materials have been built using relevant life sciences/clinical examples. The course has been designed to introduce R from the very basics. Therefore applicants do not need any prior experience to attend, just the desire to learn R. Real life examples with bioinformatic applications are included. 2020-04-01 09:00:00 UTC 2020-04-03 17:00:00 UTC Computational Biology Facility University of Liverpool, Liverpool, United Kingdom University of Liverpool Liverpool Merseyside United Kingdom L69 3GH Computational biology Statistics and probability University of Liverpool Computational Biology Facility (cbf@liverpool.ac.uk) [] [] workshops_and_courses first_come_first_served R-programmingbiostatistics Statistics R programminglife sciences, bioinformaticsClinical Bioinformatics
  • Data Science in Python (ONLINE LIVE TRAINING)

    16 - 17 April 2020

    Cambridge, United Kingdom

    Elixir node event
    Data Science in Python (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/data-science-in-python-6ffd964b-42a0-40ea-9b1e-057efa56aea6 PLEASE NOTE that until further notice, due to the evolving situation with Coronavirus no courses will be offered as classroom based at the Training Facility. The Bioinformatics Team be teaching the course live online, with tutors available to help you work through the course material on a personal copy of the course environment. We will be aiming to simulate the classroom experience as closely as possible, with opportunities for one-to-one discussion with tutors and a focus on interactivity throughout. This course covers concepts and strategies for working more effectively with Python with the aim of writing reusable code, using function and libraries. Participants will acquire a working knowledge of key concepts which are prerequisites for advanced programming in Python e.g. writing modules and classes. Note: this course is the continuation of the [Introduction to Solving Biological Problems with Python](http://training.csx.cam.ac.uk/bioinformatics/course/bioinfo-python/); participants are expected to have attended the introductory Python course and/or have acquired some working knowledge of Python. This course is also open to Python beginners who are already fluent in other programming languages as this will help them to quickly get started in Python. 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=3166613&course-title=Data%20Science%20in%20Python).'' 2020-04-16 08:30:00 UTC 2020-04-17 15:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Biology 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
  • Extracting biological information from gene lists (ONLINE LIVE TRAINING TBC)

    22 April 2020

    Cambridge, United Kingdom

    Elixir node event
    Extracting biological information from gene lists (ONLINE LIVE TRAINING TBC) https://tess.elixir-europe.org/events/extracting-biological-information-from-gene-lists-06e84be3-c3c2-40da-b84a-1465e1a5571a PLEASE NOTE that until further notice, due to the evolving situation with Coronavirus no courses will be offered as classroom based at the Training Facility. The Bioinformatics Team are investigating a workable solution to offer some of the courses on a remote basis and will be in contact with updates as soon as possible. Where courses cannot be offered online, we will advise new classroom dates as soon as we are able. 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 interesting biological themes which turn up in the lists. This course looks at the various software packages, databases and statistical methods which may be of use in performing such an analysis. As well as being a practical guide to performing these types of analysis the course will also look at the types of artefacts and bias which can lead to false conclusions about functionality and will look at the appropriate ways to both run the analysis and present the results for publication. Course materials are available [here](https://www.bioinformatics.babraham.ac.uk/training.html#fagl). The training room is located on the first floor and there is currently no wheelchair or level access available to this level. 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=3097799&course-title=Extracting%20biological%20information%20from%20gene%20lists).'' 2020-04-22 08:30:00 UTC 2020-04-22 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Biology 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
  • Analysis of bulk RNA-seq data (Pencilled in for ONLINE LIVE TRAINING)

    27 - 29 April 2020

    Cambridge, United Kingdom

    Elixir node event
    Analysis of bulk RNA-seq data (Pencilled in for ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/analysis-of-bulk-rna-seq-data-66d0a6e6-6641-406b-9df9-53937e6a1c5c PLEASE NOTE that until further notice, due to the evolving situation with Coronavirus no courses will be offered as classroom based at the Training Facility. The Bioinformatics Team are investigating a workable solution to offer some of the courses on a remote basis and will be in contact with updates as soon as possible. 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 expression analysis. For downstream analysis we will focus on tools available through the Bioconductor project for manipulating and analysing bulk RNA-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=3246123&course-title=Analysis%20of%20bulk%20RNA-seq%20data).'' 2020-04-27 08:30:00 UTC 2020-04-29 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR RNA-Seq Data mining Transcriptomics Data visualisation Functional genomics 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
  • An Introduction to MATLAB for biologists

    29 - 30 June 2020

    Cambridge, United Kingdom

    Elixir node event
    An Introduction to MATLAB for biologists https://tess.elixir-europe.org/events/an-introduction-to-matlab-for-biologists-56fe486a-5d6b-46d2-ab62-33a6bf501fb4 This course aims to give you an introduction to the basics of Matlab. During the two day course we will use a practical based approach to give you the confidence to start using Matlab in your own work. In particular we will show you how to write your own scripts and functions and how to use pre-written functions. We will also explore the many ways in which help is available to Matlab users. In addition we will cover basic computer programming in Matlab to enable you to write more efficient scripts. The training room is located on the first floor and there is currently no wheelchair or level access available to this level. 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=3398010&course-title=An%20Introduction%20to%20MATLAB).'' 2020-06-29 08:30:00 UTC 2020-06-30 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Biology 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
  • Using the Ensembl Genome Browser

    1 September 2020

    Cambridge, United Kingdom

    Elixir node event
    Using the Ensembl Genome Browser https://tess.elixir-europe.org/events/using-the-ensembl-genome-browser-467135ab-7028-4d4f-8a24-bbffa5548b3b The [Ensembl Project](http://www.ensembl.org) provides a comprehensive and integrated source of annotation of, mainly vertebrate, genome sequences. This workshop offers a comprehensive practical introduction to the use of the Ensembl genome browser as well as essential background information. This course will focus on the vertebrate genomes in Ensembl, however much of what will be covered is also applicable to the non-vertebrates (plants, bacteria, fungi, metazoa and protists) in Ensembl Genomes. The training room is located on the first floor and there is currently no wheelchair or level access available to this level. 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=3351117&course-title=Using%20the%20Ensembl%20Genome%20Browser).'' 2020-09-01 08:30:00 UTC 2020-09-01 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Gene transcripts Gene structure 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

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