Register event
  • Basic statistics in R

    7 - 21 October 2019

    Leuven, Belgium

    Elixir node event
    Basic statistics in R https://tess.elixir-europe.org/events/basic-statistics-in-r-011ad5b2-0f63-42b2-b89a-164c5e271d37 Get an idea of what R and Rstudio is Use R to handle data: creating, reading, reformatting and writing data Use R to create graphics Use basic statistical techniques in R : normality tests, t-tests, wilcoxon tests, chi square tests, correlations, survival analysis... Write and use R scripts 2019-10-07 09:00:00 UTC 2019-10-21 00:00:00 UTC VIB Bioinformatics Core Park Inn by Radisson Leuven, Leuven, Belgium Park Inn by Radisson Leuven Leuven Belgium 3010 [] [] [] [] [] []
  • Analysis of High-Throughput Sequencing Data

    21 - 25 October 2019

    Cambridge, United Kingdom

    Elixir node event
    Analysis of High-Throughput Sequencing Data https://tess.elixir-europe.org/events/analysis-of-high-throughput-sequencing-data-c870b761-2d91-4573-af2b-30783e1c7a55 This course will familiarise participants with methodologies for bioinformatics analysis on next generation sequencing (NGS) data. 2019-10-21 15:00:00 UTC 2019-10-25 15:00:00 UTC European Bioinformatics Institute (EMBL-EBI) - Training Room 1, Cambridge, United Kingdom European Bioinformatics Institute (EMBL-EBI) - Training Room 1 Cambridge United Kingdom CB10 1SD [] EMBL-EBI Training Team [] [] [] [] []
  • Genomic Data for Surveillance of Communicable Disease

    21 - 25 October 2019

    Cambridge, United Kingdom

    Elixir node event
    Genomic Data for Surveillance of Communicable Disease https://tess.elixir-europe.org/events/genomic-data-for-surveillance-of-communicable-disease This course will introduce participants to genomic approaches used in the detection and monitoring of communicable diseases. 2019-10-21 15:00:00 UTC 2019-10-25 15:00:00 UTC European Bioinformatics Institute (EMBL-EBI) - Training Room 1, Cambridge, United Kingdom European Bioinformatics Institute (EMBL-EBI) - Training Room 1 Cambridge United Kingdom CB10 1SD [] Marina Pujol [] [] [] [] []
  • ChIP-seq and ATAC-seq analysis

    23 - 24 October 2019

    Cambridge, United Kingdom

    Elixir node event
    ChIP-seq and ATAC-seq analysis https://tess.elixir-europe.org/events/chip-seq-and-atac-seq-analysis-b2a9ec58-3f94-497f-b6a6-d18041934b1f The primary aim of this course is to familiarise participants with the analysis of ChIP-seq and ATAC-seq data and provide hands-on training on the latest analytical approaches. The course starts with an introduction to ChIP-seq experiments for the detection of genome-wide DNA binding sites of transcription factors and other proteins. We first show data quality control and basic analytical steps such as alignment, peak calling and motif analysis, followed by practical examples on how to work with biological replicates and fundamental quality metrics for ChIP-seq datasets. On the second day, we then focus on the analysis of differential binding, comparing between different samples. We will also give an introduction to ATAC-seq data analysis for the detection of regions of open chromatin. 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=3049814&course-title=ChIP-seq%20and%20ATAC-seq%20analysis).'' 2019-10-23 08:30:00 UTC 2019-10-24 16:00:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR ChIP-seq Data mining Data visualisation Functional genomics Epigenomics 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
  • Data Science in Python

    30 - 31 October 2019

    Cambridge, United Kingdom

    Elixir node event
    Data Science in Python https://tess.elixir-europe.org/events/data-science-in-python-936eab84-71b6-473b-b5e4-ab74565a90d0 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. 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=3062424&course-title=Data%20Science%20in%20Python).'' 2019-10-30 09:30:00 UTC 2019-10-31 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
  • Analyzing flow cytometry data using FlowJo

    4 November 2019

    Ghent, Belgium

    Elixir node event
    Analyzing flow cytometry data using FlowJo https://tess.elixir-europe.org/events/analyzing-flow-cytometry-data-using-flowjo-3ed1b102-2a7c-4a0b-a228-37ee8d0a4a70 Learn researchers how to analyze flow cytometry data in an efficient way using FlowJo v10,the world’s nr.1 analysis software tool for flow cytometry data. This training will make you familiar with all the basic and advanced features of FlowJo v10. In the end you will be able to analyze and visualize your flow data and learn how to get the statistics out of it 2019-11-04 09:00:00 UTC 2019-11-04 00:00:00 UTC VIB Bioinformatics Core Clemenspoort Gent, Ghent, Belgium Clemenspoort Gent Ghent Belgium 9000 [] [] [] [] [] []
  • Introduction to R for Biologists

    5 - 6 November 2019

    Cambridge, United Kingdom

    Elixir node event
    Introduction to R for Biologists https://tess.elixir-europe.org/events/introduction-to-r-for-biologists-1288c345-ea99-48e3-be34-00786399b176 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. 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=3079285&course-title=Introduction%20to%20R%20for%20Biologists).'' 2019-11-05 09:30:00 UTC 2019-11-06 17:30:00 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
  • Machine Learning in R

    6 - 7 November 2019

    Heidelberg, Germany

    Machine Learning in R https://tess.elixir-europe.org/events/machine-learning-in-r Date Nov 6 - Nov 7 2019 Location EMBL Heidelberg Tutors and helpers - Dr. Malvika Sharan - Prof Bernd Bischl - Martin Binder - Giuseppe Casalicchio Affiliation: Ludwig-Maximilians-University Munich Course Information This two-day course, on the implementation of Machine Learning in R, using mlr package will be delivered as practical sessions on programming and data analysis. The main goal of mlr is to provide a unified interface for machine learning tasks as classification, regression, cluster analysis and survival analysis in R. Sessions will be driven by many practical exercises and case studies. Before this workshop, participants are expected to review the official material introducing the principle of Machine Learning (see the prerequisite). Course Content This 2-day course will cover hands-on sessions using `mlr` and other relevant packages. Daily schedule - 09:30-12:30 3h morning, 90 min Theory + 90 min Practical - 12:30-13:30 1h Lunchbreak - 13:30-16:30 3h afternoon, 90 min Theory + 90 min Practical - 16:30-17:00 Time for general questions Day 1 Introduction to the concepts and Practical with mlr - Performance Evaluation and Resampling (Metrics, CV, ROC) - Introduction to Boosting Day 2 Introduction to the concepts and Practical with mlr - Tuning and Nested Cross-Validation - Regularization and Feature Selection Prerequisite The course is aimed at advanced R programmers, preferably with some knowledge of statistics and data modeling (See prerequisite materials from Day-1, 2, & 4). In this course, our learners will learn more about machine learning and its application and implementation through the hands-on sessions and use cases. Optional: Discussion-Based Session On The Principle of Machine Learning Anna Kreshuk (EMBL Group Leader) will lead a one-day discussion-based session on 14 October 2019 to address your questions on the prerequisite materials on the principle of Machine Learning. This will also allow you to connect with other participants of this workshop informally, and discuss the materials in smaller groups. Please register for this workshop separately: https://bio-it.embl.de/events/machine-learning-discussion-workshop-2019/. Registration Please register on this page: https://bio-it.embl.de/events/machine-learning-in-r-2019/ Please note that the maximum capacity of this course is 40 participants and registration is required to secure a place. If you have any questions, please contact Malvika Sharan. In your registration, please mention your EMBL group name, or institute's name (e.g. DKFZ, Uni-HD) if you are registering as an external participant. Costs 60,00 EUR Keywords: Machine Learning, R 2019-11-06 09:00:00 UTC 2019-11-07 17:00:00 UTC de.NBI Heidelberg, Heidelberg, Germany Heidelberg Heidelberg Karlsruhe Germany [] [] [] workshops_and_courses [] []
  • Nanopore day, Heidelberg

    7 November 2019

    Heidelberg, Germany

    Elixir node event
    Nanopore day, Heidelberg https://tess.elixir-europe.org/events/nanopore-day-heidelberg Hear about the latest tech updates for Oxford Nanopore as well as hearing from local users about their latest work using nanopore technology. There is no delegate fee for this event. Your place at this event will be confirmed via email from events@nanoporetech.com. Completion of this form does not constitute confirmation. Spaces are limited and will be allocated on a first-come, first-served basis. 2019-11-07 09:00:00 UTC 2019-11-07 17:00:00 UTC Oxford Nanopore Technology EMBL Heidelberg, 1, Meyerhofstraße, Heidelberg, Germany EMBL Heidelberg, 1, Meyerhofstraße Heidelberg Karlsruhe Germany [] [] [] meetings_and_conferences first_come_first_served Long read sequencing
  • Introduction to Git & GitHub

    7 November 2019

    Ghent, Belgium

    Elixir node event
    Introduction to Git & GitHub https://tess.elixir-europe.org/events/introduction-to-git-github Get you started with Git from zero (note that if you already use Git, this workshop will be too basic for you). We'll also look into Atom as an editor and GitHub Desktop version which will facilitate your programming life. Setting up Git Creating a repository Track changes & add messages to your changes Exploring your file history Ignoring things Connect to GitHub Collaborating 2019-11-07 09:00:00 UTC 2019-11-07 00:00:00 UTC VIB Bioinformatics Core Clemenspoort Gent, Ghent, Belgium Clemenspoort Gent Ghent Belgium 9000 [] [] [] [] [] []
  • de.NBI & ELIXIR - Train the Trainer Workshop to Learn Teaching Techniques

    11 - 12 November 2019

    Heidelberg, Germany

    de.NBI & ELIXIR - Train the Trainer Workshop to Learn Teaching Techniques https://tess.elixir-europe.org/events/de-nbi-elixir-train-the-trainer-workshop-to-learn-teaching-techniques de.NBI & ELIXIR - Train the Trainer Workshop to Learn Teaching Techniques Heidelberg Educators: Malvika Sharan, Toby Hodges (HD-HuB), Elisabeth Zielonka Date: 11-11-2019 - 12-11-2019 09:30-17:00 Location: EMBL Heidelberg Room 202 Contents: The course is aimed at everyone who is interested in becoming a better teacher. The workshop is a mix of lectures and hands-on lessons where you practise giving a short lesson using approaches learned and implement some of the teaching techniques which we will discuss. This is training for teaching, not technical training; you do not need any particular technical background, and we will not be teaching that. This workshop is based on the constantly revised and updated curriculum. We will offer two parallel tracks (The Carpentries Track and ELIXIR Track), and you will be asked to choose one track that you would like to attend during this event. The Carpentries Track to become Software Carpentry, Data Carpentry and Library Carpentry instructors, run workshops and contribute to the Carpentry training materials. ELIXIR Track is a non-programming module which will prepare you to organise or teach at the bioinformatics or wet-biology workshops. The Carpentries Track This module is aimed at those who want to become Software Carpentry and Data Carpentry instructors, run workshops and contribute to the Carpentry training materials. You don't currently have to be an instructor or a teacher to attend this workshop, but you do need to be willing and committed to becoming one and to improving your teaching techniques. Software Carpentry and Data Carpentry's mission is to help scientists and engineers get more research done in less time and with less pain by teaching them basic lab skills for scientific computing. This hands-on two-day workshop covers the basics of educational psychology and instructional design and looks at how to use these ideas in both intensive workshops and regular classes. Please note that after this course is over, you will be asked to do three short follow-up exercises online in order to finish qualifying as an instructor: the details are available athttps://carpentries.github.io/instructor-training/checkout/. If you have any questions about the workshop, the reading material, or anything else, please get in touch. ELIXIR (non-programming) Track ELIXIR unites Europe’s leading life science organisations in managing and safeguarding the increasing volume of data being generated by publicly funded research. It coordinates, integrates and sustains bioinformatics resources across its member states and enables users in academia and industry to access services that are vital for their research. In this module the trainer will deliver the ELIXIR curriculum aimed at the instructors interested in teaching workshops on the topics related to bioinformatics or wet-biology. Learning goals: This course aims to teach software writing skills and best practices to researchers in biology who wish to analyse data, and to introduce a toolset that can help them in their work. The goal is to enable them to be more productive and to make their science better and more reproducible. Prerequisites: When possible, participants should bring a laptop that can be connected to the Internet to follow teaching materials and developing a shared note. A device for recording audio and video (mobile phones and laptops are OK) will also be useful as throughout the two days, we are going to record one another teaching in pairs or threes. It does not have to be high-quality, but it should be good enough that you can understand what someone is saying. All participants are required to abide by The Carpentries' Code of Conduct. Keywords: Train the Trainer, 2019-11-11 09:00:00 UTC 2019-11-12 17:00:00 UTC de.NBI / ELIXIR Heidelberg, Heidelberg, Germany Heidelberg Heidelberg Karlsruhe Germany [] [] [] workshops_and_courses [] []
  • Bioinformatics & Functional Genomics in Zebrafish

    11 - 14 November 2019

    Cambridge, United Kingdom

    Elixir node event
    Bioinformatics & Functional Genomics in Zebrafish https://tess.elixir-europe.org/events/bioinformatics-functional-genomics-in-zebrafish-5f0fa5f9-c6c7-4169-8dd4-50c25518e259 This course has been designed specifically for researchers working within the Zebrafish community, providing an introduction and practical knowledge of tools and resources for working with functional genomics data. 2019-11-11 10:30:00 UTC 2019-11-14 15:00:00 UTC European Bioinformatics Institute (EMBL-EBI) - Training Room 2, Cambridge, United Kingdom European Bioinformatics Institute (EMBL-EBI) - Training Room 2 Cambridge United Kingdom CB10 1SD [] Meredith Willmott [] [] [] [] HDRUK
  • Basic statistics in R - Leuven

    18 November - 2 December 2019

    Leuven, Belgium

    Elixir node event
    Basic statistics in R - Leuven https://tess.elixir-europe.org/events/basic-statistics-in-r-leuven Get an idea of what R and Rstudio is Use R to handle data: creating, reading, reformatting and writing data Use R to create graphics Use basic statistical techniques in R : normality tests, t-tests, wilcoxon tests, chi square tests, correlations, survival analysis... Write and use R scripts 2019-11-18 09:00:00 UTC 2019-12-02 00:00:00 UTC VIB Bioinformatics Core Park Inn by Radisson Leuven, Leuven, Belgium Park Inn by Radisson Leuven Leuven Belgium 3010 [] [] [] [] [] []
  • Bioinformatics for Plant Biology

    18 - 21 November 2019

    Cambridge, United Kingdom

    Elixir node event
    Bioinformatics for Plant Biology https://tess.elixir-europe.org/events/bioinformatics-for-plant-biology-35da1f88-62fd-45d1-9729-e15e94b145d9 This course will introduce plant biologists to methods and approaches for analysing the genomic data. Over the duration of the course, participants will learn how to study comparative genomics using Ensembl, analyse variation data (including the Ensembl Variant Effect Predictor and the European Variation Archive), and concepts of genome wide association studies (GWAS). The content will also explain how to make use of existing public data, retrieve, submit and share your discoveries with the community. 2019-11-18 11:30:00 UTC 2019-11-21 14:00:00 UTC European Bioinformatics Institute (EMBL-EBI), Cambridge, United Kingdom European Bioinformatics Institute (EMBL-EBI) Cambridge United Kingdom CB10 1SD [] Meredith Willmott [] [] [] [] []
  • Bioinformatics for Crop Plants

    18 - 21 November 2019

    Cambridge, United Kingdom

    Elixir node event
    Bioinformatics for Crop Plants https://tess.elixir-europe.org/events/bioinformatics-for-crop-plants We are sorry to announce that this course is cancelled meaning that it will no longer run this year.  2019-11-18 11:30:00 UTC 2019-11-21 14:00:00 UTC European Bioinformatics Institute (EMBL-EBI), Cambridge, United Kingdom European Bioinformatics Institute (EMBL-EBI) Cambridge United Kingdom CB10 1SD [] Meredith Willmott [] [] [] [] HDRUK
  • Genome Engineering

    19 November 2019

    Leuven, Belgium

    Elixir node event
    Genome Engineering https://tess.elixir-europe.org/events/genome-engineering 2019-11-19 09:00:00 UTC 2019-11-19 00:00:00 UTC VIB Bioinformatics Core Provinciehuis Vlaams-Brabant, Leuven, Belgium Provinciehuis Vlaams-Brabant Leuven Belgium 3010 [] [] [] [] [] []
  • Analysis of DNA Methylation using Sequencing

    20 November 2019

    Cambridge, United Kingdom

    Elixir node event
    Analysis of DNA Methylation using Sequencing https://tess.elixir-europe.org/events/analysis-of-dna-methylation-using-sequencing-a7e83220-4a9b-4058-872e-7314cb5c68e2 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 will be comprised of a mixture of theoretical lectures and practicals covering a range of different software packages. 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=3088732&course-title=Analysis%20of%20DNA%20Methylation%20using%20Sequencing).'' 2019-11-20 09:30:00 UTC 2019-11-20 17:30:00 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
  • 3D-BioInfo Community Annual Meeting

    21 - 22 November 2019

    Cambridge, United Kingdom

    Elixir node event
    3D-BioInfo Community Annual Meeting https://tess.elixir-europe.org/events/3d-bioinfo-community-annual-meeting This event is the first official meeting of the 3D-BioInfo community with an aim to plan major activities and to identify research groups wishing to contribute to these activities. 2019-11-21 12:00:00 UTC 2019-11-22 16:00:00 UTC European Bioinformatics Institute (EMBL-EBI), Cambridge, United Kingdom European Bioinformatics Institute (EMBL-EBI) Cambridge United Kingdom CB10 1SD [] Charlotte Pearton [] [] [] [] HDRUK
  • Analysis of 16S rRNA metagenomic experiments

    25 November 2019

    Leuven, Belgium

    Elixir node event
    Analysis of 16S rRNA metagenomic experiments https://tess.elixir-europe.org/events/analysis-of-16s-rrna-metagenomic-experiments Processing and statistical analysis of 16S rRNA metagenomic experiments using R & Lotus pipeline. The following analytical steps from raw data to communicable results will be on the programme: - Preparation of sequencing data, read filtering, data cleaning - Data normalization - Numerical ecology: Clustering, Ordination, Diversity, Modelling - Univariate & Multivariate Statistics - Biological interpretation 2019-11-25 09:00:00 UTC 2019-11-25 00:00:00 UTC VIB Bioinformatics Core Park Inn by Radisson Leuven, Leuven, Belgium Park Inn by Radisson Leuven Leuven Belgium 3010 [] [] [] [] [] []
  • Using the Ensembl Genome Browser

    27 November 2019

    Cambridge, United Kingdom

    Elixir node event
    Using the Ensembl Genome Browser https://tess.elixir-europe.org/events/using-the-ensembl-genome-browser-61d56b3e-79d2-49c2-bf4d-5b80e40bb5eb 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=3089173&course-title=Using%20the%20Ensembl%20Genome%20Browser).'' 2019-11-27 09:30:00 UTC 2019-11-27 17:30:00 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
  • Single cell RNA-seq analysis: From questions to clusters

    27 - 29 November 2019

    Cambridge, United Kingdom

    Elixir node event
    Single cell RNA-seq analysis: From questions to clusters https://tess.elixir-europe.org/events/single-cell-rna-seq-analysis-from-questions-to-clusters This course trains participants to analyse single cell RNA-seq data utilising Galaxy pipelines, an online open-access resource for the computer-phobic. 2019-11-27 10:00:00 UTC 2019-11-29 18:30:00 UTC European Bioinformatics Institute (EMBL-EBI) - Training Room 2, Cambridge, United Kingdom European Bioinformatics Institute (EMBL-EBI) - Training Room 2 Cambridge United Kingdom CB10 1SD [] Marina Pujol [] [] [] [] HDRUK
  • An Introduction to Solving Biological Problems with Python

    5 - 6 December 2019

    Cambridge, United Kingdom

    Elixir node event
    An Introduction to Solving Biological Problems with Python https://tess.elixir-europe.org/events/an-introduction-to-solving-biological-problems-with-python-6dce95aa-2e95-4f84-a991-ca68dbb15de0 This course provides a practical introduction to the writing of Python programs for the complete novice. Participants are lead through the core aspects of Python illustrated by a series of example programs. Upon completion of the course, attentive participants will be able to write simple Python programs and customize more complex code to fit their needs. Course materials are available [here](http://pycam.github.io). Please note that the content of this course has recently been updated. This course now mostly focuses on core concepts including Python syntax, data structures and reading/writing files. Concepts and strategies for working more effectively with Python are now the focus of a new 2-days course, [Data Science in Python](http://training.csx.cam.ac.uk/bioinformatics/course/bioinfo-dspyt/). 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=3072638&course-title=An%20Introduction%20to%20Solving%20Biological%20Problems%20with%20Python).'' 2019-12-05 09:30:00 UTC 2019-12-06 17:30:00 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
  • BioSB course: Modelling and optimization

    9 - 13 December 2019

    Wageningen, Netherlands

    Elixir node event
    BioSB course: Modelling and optimization https://tess.elixir-europe.org/events/biosb-course-modeling-and-optimization Course description In this course the participants learn how to describe the dynamic behavior of biological systems, and how to use optimization techniques to solve a variety of problems in bioinformatics and systems biology. Concepts of modelling in terms of… The post BioSB course: Modelling and optimization appeared first on Dutch Techcentre for Life Sciences. 2019-12-09 09:00:00 UTC 2019-12-13 00:00:00 UTC Wageningen, the Netherlands, Wageningen, Netherlands Wageningen, the Netherlands Wageningen Netherlands [] [] [] workshops_and_courses [] []
  • IAFIG-RMS: Bioimage analysis with Python

    9 - 13 December 2019

    Cambridge, United Kingdom

    Elixir node event
    IAFIG-RMS: Bioimage analysis with Python https://tess.elixir-europe.org/events/iafig-rms-bioimage-analysis-with-python The aim of this 5 days course is to develop motivated participants toward becoming independent BioImage Analysts in an imaging facility or research role. Participants will be taught theory and algorithms relating to bioimage analysis using Python as the primary coding language. Lectures will focus on image analysis theory and applications. Topics to be covered include: Image Analysis and image processing, Python and Jupyter notebooks, Visualisation, Fiji to Python, Segmentation, Omero and Python, Image Registration, Colocalisation, Time-series analysis, Tracking, Machine Learning, and Applied Machine Learning. The bulk of the practical work will focus on Python and how to code algorithms and handle data using Python. Fiji will be used as a tool to facilitate image analysis. Omero will be described and used for some interactive coding challenges. Research spotlight talks will demonstrate research of instructors/scientists using taught techniques in the wild. This event is organized in collaboration with the [Image Analysis Focused Interest Group](http://iafig-rms.org/) and is sponsored by the [Royal Microscopical Society](https://www.rms.org.uk/). 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=3129158&amp;course-title=BioImage%20analysis%20with%20Python).'' 2019-12-09 09:30:00 UTC 2019-12-13 17:00:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Data visualisation Data mining Biological imaging Bioinformatics University of Cambridge Bioinformatics Training [] Cell BiologistsBiophysicistsBioImage Analysts with some experience of basic microscopy image analysisThis course may be of interest to physical scientists looking to develop their knowledge of Python coding in the context of bioimage analysisThis course is appropriate for researchers who are relatively proficient with computers but maybe not had the time or resources available to become programmers.The course is open to Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals<span style="color:#FF0000">Please note that all participants attending this course will be charged a registration fee. <span style="color:#0000FF"> Members of Industry to pay 575.00 GBP. </span style> <span style="color:#0000FF">All Members of the University of CambridgeAffiliated Institutions and other academic participants from External Institutions and Charitable Organizations to pay 250.00 GBP. </span style> <span style="color:#FF0000">A booking will only be approved and confirmed once the fee has been paid in full.</span style> workshops_and_courses [] HDRUK
  • Analysis of single cell RNA-seq data

    16 - 17 December 2019

    Cambridge, United Kingdom

    Elixir node event
    Analysis of single cell RNA-seq data https://tess.elixir-europe.org/events/analysis-of-single-cell-rna-seq-data-1cd0c9cc-dbb1-416f-8738-5bd702af8877 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. The course website providing links to the course materials can be found [here](http://hemberg-lab.github.io/scRNA.seq.course/index.html). 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=3097806&amp;&amp;course-title=Analysis%20of%20single%20cell%20RNA-seq%20data).'' 2019-12-16 09:30:00 UTC 2019-12-17 17:30:00 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
  • Snakemake workshop

    6 - 7 January 2020

    Cambridge, United Kingdom

    Elixir node event
    Snakemake workshop https://tess.elixir-europe.org/events/snakemake-workshop 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 100k downloads on Bioconda, Snakemake is a widely used and accepted standard for reproducible data science that has powered numerous high impact publications. This 2-day workshop with, at the first day, teach how to use Snakemake for reproducible data analysis. On the second day, we will further discuss advanced topics and everybody is welcome to apply the obtained knowledge for his or her own analysis project while getting help from the organizers. 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=3108957&amp;course-title=Snakemake%20workshop).'' 2020-01-06 09:30:00 UTC 2020-01-07 17:00:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Bioinformatics University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Gentle hands-on introduction to Python programming

    9 - 10 January 2020

    Leuven, Belgium

    Elixir node event
    Gentle hands-on introduction to Python programming https://tess.elixir-europe.org/events/gentle-hands-on-introduction-to-python-programming-6124936d-cd9a-431f-b7de-2736a4c81e66 Learning the basics of Python programming: different variables, reading files, writing files, conditional statements Being able to write a basic Python script from scratch 2020-01-09 09:00:00 UTC 2020-01-10 00:00:00 UTC VIB Bioinformatics Core Park Inn by Radisson Leuven, Leuven, Belgium Park Inn by Radisson Leuven Leuven Belgium 3010 [] [] [] [] [] []
  • Software Carpentry

    21 - 22 January 2020

    Norwich, United Kingdom

    Software Carpentry https://tess.elixir-europe.org/events/software-carpentry-e28d91b4-59e7-47d7-a7f0-54b3d09e0172 Our goal is to help scientists become more productive by teaching them basic computing skills like program design, version control, testing and task automation. In this two-day bootcamp, short tutorials will alternate with hands-on practical exercises. Participants will be encouraged both to help one another, and to apply what they have learned to their own research problems during and between sessions. 2020-01-21 09:00:00 UTC 2020-01-22 17:00:00 UTC Earlham Institute Earlham Institute (EI), Colney Lane, Norwich, United Kingdom Earlham Institute (EI), Colney Lane Norwich Norfolk United Kingdom NR4 7UZ Earlham Institute training@earlham.ac.uk [] PhD studentspost-docspostgrad workshops_and_courses first_come_first_served SoftwareCarpentrypythonUnix Shell
  • Introduction to RNA-Seq and Functional Interpretation

    21 - 24 January 2020

    Cambridge, United Kingdom

    Elixir node event
    Introduction to RNA-Seq and Functional Interpretation https://tess.elixir-europe.org/events/introduction-to-rna-seq-and-functional-interpretation-e2471a7b-692d-419f-8746-a251893793f3 This course is aimed at life science researchers wanting to learn more about processing RNA-Seq data and later downstream analysis. 2020-01-21 09:00:00 UTC 2020-01-24 17:00:00 UTC European Bioinformatics Institute (EMBL-EBI), Cambridge, United Kingdom European Bioinformatics Institute (EMBL-EBI) Cambridge United Kingdom CB10 1SD [] Marina Pujol [] [] [] [] HDRUK
  • Extracting biological information from gene lists

    23 January 2020

    Cambridge, United Kingdom

    Elixir node event
    Extracting biological information from gene lists https://tess.elixir-europe.org/events/extracting-biological-information-from-gene-lists-06e84be3-c3c2-40da-b84a-1465e1a5571a 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&amp;course-title=Extracting%20biological%20information%20from%20gene%20lists).'' 2020-01-23 09:30:00 UTC 2020-01-23 17:30:00 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
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