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  • Core Statistics (ONLINE LIVE TRAINING)

    13 - 27 April 2021

    Cambridge, United Kingdom

    Elixir node event
    Core Statistics (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/core-statistics-online-live-training-372cc372-3912-4b4b-841e-95abaa36090a PLEASE NOTE that this course will be taught live online, with tutors available to help you throughout if have any questions. All resources and lectures will be recorded and uploaded to the course VLE page so that you will be able to access that information even if technical or time zone restrictions means that you aren't able to join us for all of the live sessions. This [award winning](https://www.cambridge.org/core/cambridge-technology-enabled-learning-prize-2020) virtually delivered course is intended to provide a strong foundation in practical statistics and data analysis using the R or Python software environments. 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 or Python confidently for statistics and data analysis # Be able to analyse datasets using standard statistical techniques # Know which tests are and are not appropriate Both R and Python are free software environments that are suitable for statistical and data analysis. 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 or Python 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=3816286&course-title=Core%20Statistics).'' 2021-04-13 08:30:00 UTC 2021-04-27 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 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
  • Analysis of bulk RNA-seq data (ONLINE LIVE TRAINING)

    21 - 23 April 2021

    Cambridge, United Kingdom

    Elixir node event
    Analysis of bulk RNA-seq data (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/analysis-of-bulk-rna-seq-data-online-live-training-840d7bcc-8372-428a-9cde-a308c3b5d98b PLEASE NOTE The Bioinformatics Team are presently teaching as many courses live online, with tutors available to help you work through the course material on a personal copy of the course environment. We aim to simulate the classroom experience as closely as possible, with opportunities for one-to-one discussion with tutors and a focus on interactivity throughout. 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=3748821&course-title=Analysis%20of%20bulk%20RNA-seq%20data).'' 2021-04-21 08:30:00 UTC 2021-04-23 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
  • Introduction to Command Line Linux (Online)

    26 April 2021

    Cambridge, United Kingdom

    Elixir node event
    Introduction to Command Line Linux (Online) https://tess.elixir-europe.org/events/introduction-to-command-line-linux-online-1fbc711c-d6e0-498d-b7b3-4cf233296455 PLEASE NOTE The Bioinformatics Team are presently teaching as many courses live online, with tutors available to help you work through the course material on a personal copy of the course environment. We aim 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 short (0.5 day) intensive course serves to introduce you to the command-line interface in Linux. It is based upon elements of the Software Carpentries Shell(novice) and Shell(extras) courses. It is recommended for those CI personnel planning on attending the CI High Performance Computing facilities (Cluster) course. This course is run by the [CRUK CI Bioinformatics and IT core](https://www.cruk.cam.ac.uk/core-facilities/bioinformatics-core/). 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=3857931&course-title=Introduction%20to%20Command%20Line%20Linux).'' 2021-04-26 12:00:00 UTC 2021-04-26 16:00:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Bioinformatics University of Cambridge Bioinformatics Training [] The course is recommended for all staff and students who use Linux in their research or plan on attending the CI High Performance Computing facilities (Cluster) course.Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Snakemake workshop (ONLINE LIVE TRAINING)

    28 April 2021

    Cambridge, United Kingdom

    Elixir node event
    Snakemake workshop (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/snakemake-workshop-online-live-training PLEASE NOTE The Bioinformatics Team are presently teaching as many courses live online. We aim to simulate the classroom experience as closely as possible, with opportunities for one-to-one discussion with tutors and a focus on interactivity throughout. Data analyses usually entail the application of many command line tools or scripts to transform, filter, aggregate or plot data and results. With ever increasing amounts of data being collected in science, reproducible and scalable automatic workflow management becomes increasingly important. The [Snakemake](https://snakemake.readthedocs.io/en/stable/) workflow management system is a tool to create reproducible and scalable data analyses. Workflows are described via a human readable, Python based language. They can be seamlessly scaled to server, cluster, grid and cloud environments, without the need to modify the workflow definition. Finally, Snakemake workflows can entail a description of required software, which will be automatically deployed to any execution environment. With over 200k downloads on Bioconda, and on average 6 new citations per week, Snakemake is a widely used and accepted standard for reproducible data science that has powered numerous high impact publications. This 1-day workshop will teach how to use Snakemake for reproducible data analysis. 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=3824574&course-title=Snakemake%20workshop).'' 2021-04-28 08:30:00 UTC 2021-04-28 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Bioinformatics University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Analysis of mapped NGS data with SeqMonk (ONLINE LIVE TRAINING)

    30 April 2021

    Cambridge, United Kingdom

    Elixir node event
    Analysis of mapped NGS data with SeqMonk (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/analysis-of-mapped-ngs-data-with-seqmonk-online-live-training 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 will be teaching the course live online in conjunction with the presenters. [SeqMonk](http://www.bioinformatics.babraham.ac.uk/projects/seqmonk/) is a graphical program for the visualisation and analysis of large mapped sequencing datasets such as ChIP-Seq, RNA-Seq, and BS-Seq. The program allows you to view your reads against an annotated genome and to quantitate and filter your data to let you identify regions of interest. It is a friendly way to explore and analysis very large datasets. This course provides an introduction to the main features of SeqMonk and will run through the analysis of a couple of different datasets to show what sort of analysis options it provides. Further information is available [here](http://www.bioinformatics.babraham.ac.uk/training.html#seqmonk). 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=3828956&course-title=Analysis%20of%20mapped%20NGS%20data%20with%20Seqmonk).'' 2021-04-30 08:30:00 UTC 2021-04-30 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR RNA-Seq Exome sequencing Data mining Data visualisation ChIP-seq 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 DNA Methylation using Sequencing (ONLINE LIVE TRAINING)

    7 May 2021

    Cambridge, United Kingdom

    Elixir node event
    Analysis of DNA Methylation using Sequencing (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/analysis-of-dna-methylation-using-sequencing-online-live-training-0c38e11b-beb6-4735-b589-ba6f5b8a19cd 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 will be teaching the course live online in conjunction with the presenters. This course will cover all aspects of the analysis of DNA methylation using sequencing, including primary analysis, mapping and quality control of BS-Seq data, common pitfalls and complications. It will also include exploratory analysis of methylation, looking at different methods of quantitation, and a variety of ways of looking more widely at the distribution of methylation over the genome. Finally the course will look at statistical methods to predict differential methylation. The course comprises of a mixture of theoretical lectures and practicals covering a range of different software packages. 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=3748842&course-title=Analysis%20of%20DNA%20Methylation%20using%20Sequencing).'' 2021-05-07 08:30:00 UTC 2021-05-07 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Epigenetics Data visualisation 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
  • Complex Network Analysis for Biologists (ONLINE LIVE TRAINING)

    11 May 2021

    Cambridge, United Kingdom

    Elixir node event
    Complex Network Analysis for Biologists (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/complex-network-analysis-for-biologists-online-live-training PLEASE NOTE The Bioinformatics Team are presently teaching as many courses live online, with tutors to assist you with instant and personalised feedback and to help you to run/execute the scripts which we will be using during the course. We aim to simulate the classroom experience as closely as possible, with opportunities for one-to-one discussion with tutors and a focus on interactivity throughout. Complex natural systems permeate many aspects of everyday life—including human intelligence, social media, biomedicine, agriculture, economics, even our personal and professional relationships. The past decade has seen intensification of research into structural and dynamical properties of complex networks. This course will introduce the basic principles of network theory, and hands-on DIY Network analysis using Cytoscape, one of the most widely used global platforms for construction and analysis of biomolecular networks such as gene regulatory interactions, protein complexes, hydrogen-bonding meshwork in active sites and neuronal networks. The aim is to conceptualize your own textual, tabular or genomic datasets as networks, and to understand how simple topological features can help to decipher complex properties of systems and processes. 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=3879479&course-title=Complex%20Network%20Analysis%20for%20Biologists).'' 2021-05-11 08:30:00 UTC 2021-05-11 16:30:00 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 tutorial is basic and requires no prior knowledge of any coding language or software.Cytoscape will have to be downloaded and installed on your device for the practical sessions.Suitable for students and early career researcherspostdocs.Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Introduction to Linear Modelling with R (Online)

    14 May 2021

    Cambridge, United Kingdom

    Elixir node event
    Introduction to Linear Modelling with R (Online) https://tess.elixir-europe.org/events/introduction-to-linear-modelling-with-r-online-eb93de92-1c14-406b-94f9-7ca8ea0f4bce PLEASE NOTE The Bioinformatics Team are presently teaching as many courses live online, with tutors available to help you work through the course material on a personal copy of the course environment. We aim to simulate the classroom experience as closely as possible, with opportunities for one-to-one discussion with tutors and a focus on interactivity throughout. The course will cover ANOVA, linear regression and some extensions. It will be a mixture of lectures and hands-on time using RStudio to analyse data. This event is part of a series of training courses organized in collaboration with the Bioinformatics Core Facility at [CRUK Cambridge Institute](http://www.cruk.cam.ac.uk/). 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=3878081&course-title=Introduction%20to%20Linear%20Modelling%20With%20R).'' 2021-05-14 08:30:00 UTC 2021-05-14 16:15:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Bioinformatics University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK

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