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  • Image Analysis for Biologists

    7 - 9 December 2015

    Cambridge, United Kingdom

    Elixir node event
    Image Analysis for Biologists https://tess.elixir-europe.org/events/image-analysis-for-biologists This course will focus on computational methods for analysing cellular images and extracting quantitative data from them. The aim of this course is to familiarise the participants with computational image analysis methodologies, and to provide hands-on training in running quantitative analysis pipelines. On day 1 we will introduce principles of image processing and analysis, giving an overview of commonly used algorithms through a series of talks and practicals based on Fiji, an extensible open source software package. On day 2, we will focus on machine learning and computer vision for the analysis of images in cell biology. We will introduce the methodology in a series of lectures and show their application in the hands-on session. These practical sessions will be based on [CellCognition](http://www.cellcognition.org/), a tool for the analysis of live cell imaging data. On day 3, we will describe the open [Icy platform](http://icy.bioimageanalysis.org/) developed at the Institut Pasteur. Icy is a next-generation, user-friendly software offering powerful acquisition, visualization, annotation and analysis algorithms for 5D bioimaging data, together with unique automation/scripting capabilities (notably via its graphical programming interface) and tight integration with existing software (e.g. ImageJ, Matlab, Micro-Manager). The timetable can be found [here](https://drive.google.com/file/d/0B5BzNXp93Gp5MnBPU0RKOV9TOEU/view?usp=sharing). This event is sponsored by the [Systems Microscopy NoE](http://www.systemsmicroscopy.eu/). 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://marstons.bio.cam.ac.uk/course-booking/?CourseID=Image%20Analysis%20for%20Biologists%20_7-9.12.2015_1544771&CourseName=Image%20Analysis%20for%20Biologists&CourseDate=7-9.12.2015&CourseDuration=3&EventID=1544771).'' 2015-12-07 09:30:00 UTC 2015-12-09 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 [] Researchers who are applying or planning to apply image analysis in their researchGraduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Image Analysis for Biologists

    19 - 20 May 2016

    Cambridge, United Kingdom

    Elixir node event
    Image Analysis for Biologists https://tess.elixir-europe.org/events/image-analysis-for-biologists-38e69a97-3885-4082-b017-1d3e0a1bb064 This course will focus on computational methods for analysing cellular images and extracting quantitative data from them. The aim of this course is to familiarise the participants with computational image analysis methodologies, and to provide hands-on training in running quantitative analysis pipelines. On day 1 we will introduce principles of image processing and analysis, giving an overview of commonly used algorithms through a series of talks and practicals based on Fiji, an extensible open source software package. On day 2, we will describe the open [Icy platform](http://icy.bioimageanalysis.org/) developed at the Institut Pasteur. Icy is a next-generation, user-friendly software offering powerful acquisition, visualization, annotation and analysis algorithms for 5D bioimaging data, together with unique automation/scripting capabilities (notably via its graphical programming interface) and tight integration with existing software (e.g. ImageJ, Matlab, Micro-Manager). The timetable can be found [here](http://bioinfotraining.bio.cam.ac.uk/postgraduate/specialized/bioinfo-image). 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://marstons.bio.cam.ac.uk/course-booking/?CourseID=Image%20Analysis%20for%20Biologists%20_19-20.05.2016_1706338&CourseName=Image%20Analysis%20for%20Biologists&CourseDate=19-20.05.2016&CourseDuration=2&EventID=1706338).'' 2016-05-19 08:30:00 UTC 2016-05-20 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 [] Researchers who are applying or planning to apply image analysis in their researchGraduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Bioinformatics for Principal Investigators

    20 - 21 September 2016

    Cambridge, United Kingdom

    Elixir node event
    Bioinformatics for Principal Investigators https://tess.elixir-europe.org/events/bioinformatics-for-principal-investigators-304ffc9c-9844-4138-b1e4-b2d3d723f6d7 The aim of this workshop is to introduce principal investigators to the challenges of working with biological data, to provide guidance on how to manage such data and to encourage the development of bioinformatics skills in their team. A timetable for this workshop can be found [here](http://bioinfotraining.bio.cam.ac.uk/postgraduate/specialized/bioinfo-PIs). 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=1798944&course-title=Bioinformatics%20for%20Principal%20Investigators).'' 2016-09-20 08:00:00 UTC 2016-09-21 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 [] Principal Investigators from the University of CambridgeInstitutions and other external Institutionswho are using or planning to use bioinformatics in their research workshops_and_courses [] HDRUK
  • Image Analysis for Biologists

    12 - 14 December 2016

    Cambridge, United Kingdom

    Elixir node event
    Image Analysis for Biologists https://tess.elixir-europe.org/events/image-analysis-for-biologists-a6ce3427-1d29-46e0-9738-bc9d4dca1538 This course will focus on computational methods for analysing cellular images and extracting quantitative data from them. The aim of this course is to familiarise the participants with computational image analysis methodologies, and to provide hands-on training in running quantitative analysis pipelines. On day 1 we will introduce principles of image processing and analysis, giving an overview of commonly used algorithms through a series of talks and practicals based on [Fiji](http://fiji.sc/), an extensible open source software package. On day 2, we will describe the open [Icy platform](http://icy.bioimageanalysis.org/) developed at the Institut Pasteur. Icy is a next-generation, user-friendly software offering powerful acquisition, visualization, annotation and analysis algorithms for 5D bioimaging data, together with unique automation/scripting capabilities (notably via its graphical programming interface) and tight integration with existing software (e.g. ImageJ, Matlab, Micro-Manager). On day 3, we will cover time series processing and cell tracking using [TrackMate](http://imagej.net/TrackMate). Additionally, in the afternoon we will run a study design and data clinic (sign up will be required) for participants that wish to discuss their experiments. A timetable is available [here](http://bioinfotraining.bio.cam.ac.uk/postgraduate/specialized/bioinfo-image). 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=1879343&course-title=Image%20Analysis%20for%20Biologists).'' 2016-12-12 09:30:00 UTC 2016-12-14 16:00:00 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 [] Researchers who are applying or planning to apply image analysis in their researchGraduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Image Analysis for Biologists

    26 - 28 June 2017

    Cambridge, United Kingdom

    Elixir node event
    Image Analysis for Biologists https://tess.elixir-europe.org/events/image-analysis-for-biologists-cd4b3336-bf22-48de-8e32-e4c22f2c4722 This course will focus on computational methods for analysing cellular images and extracting quantitative data from them. The aim of this course is to familiarise the participants with computational image analysis methodologies, and to provide hands-on training in running quantitative analysis pipelines. On day 1 we will introduce principles of image processing and analysis, giving an overview of commonly used algorithms through a series of talks and practicals based on [Fiji](http://fiji.sc/), an extensible open source software package. On day 2, we will describe the open [Icy platform](http://icy.bioimageanalysis.org/) developed at the Institut Pasteur. Icy is a next-generation, user-friendly software offering powerful acquisition, visualisation, annotation and analysis algorithms for 5D bioimaging data, together with unique automation/scripting capabilities (notably via its graphical programming interface) and tight integration with existing software (e.g. ImageJ, Matlab, Micro-Manager). On day 3, we will cover time series processing and cell tracking using [TrackMate](http://imagej.net/TrackMate). In the afternoon, we will present the [Image Data Resource](https://idr.openmicroscopy.org/), an added-value platform that combines data from multiple independent imaging experiments and imaging modalities and integrates them into a single resource for reanalysis in a convenient, scalable form. 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=2046117&course-title=Image%20Analysis%20for%20Biologists).'' 2017-06-26 08:30:00 UTC 2017-06-28 15:00:00 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 [] Researchers who are applying or planning to apply image analysis in their researchGraduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals 42 workshops_and_courses first_come_first_served HDRUK
  • Image Analysis for Biologists

    11 - 12 December 2017

    Cambridge, United Kingdom

    Elixir node event
    Image Analysis for Biologists https://tess.elixir-europe.org/events/image-analysis-for-biologists-1d1fbf41-6de4-4c72-9dad-ee405e6a9389 This course will focus on computational methods for analysing cellular images and extracting quantitative data from them. The aim of this course is to familiarise the participants with computational image analysis methodologies, and to provide hands-on training in running quantitative analysis pipelines. On day 1 we will introduce principles of image processing and analysis, giving an overview of commonly used algorithms through a series of talks and practicals based on [Fiji](http://fiji.sc/), an extensible open source software package. On day 2, we will cover time series processing and cell tracking using [TrackMate](http://imagej.net/TrackMate). The afternoon of day two will focus on understanding the basics of deconvolution and colocalisation, using tools in Fiji to look at basic examples of how to apply deconvolution and how to carry out colocalisation analysis in fluorescence microscopy. 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=1923480&course-title=Image%20Analysis%20for%20Biologists).'' 2017-12-11 09:30:00 UTC 2017-12-12 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 [] Researchers who are applying or planning to apply image analysis in their researchGraduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Image Analysis for Biologists

    9 - 11 July 2018

    Cambridge, United Kingdom

    Elixir node event
    Image Analysis for Biologists https://tess.elixir-europe.org/events/image-analysis-for-biologists-2e61e51b-b3c2-44bb-844e-191710e6ffd5 This course will focus on computational methods for analysing cellular images and extracting quantitative data from them. The aim of this course is to familiarise the participants with computational image analysis methodologies, and to provide hands-on training in running quantitative analysis pipelines. On day 1 we will introduce principles of image processing and analysis, giving an overview of commonly used algorithms through a series of talks and practicals based on [Fiji](http://fiji.sc/), an extensible open source software package. On day 2, we will cover time series processing and cell tracking using [TrackMate](http://imagej.net/TrackMate) and advanced image segmentation using [Ilastik](http://ilastik.org/). Additionally, in the afternoon we will run a study design and data clinic (sign up will be required) for participants that wish to discuss their experiments. On day 3, we will describe the open [Icy platform](http://icy.bioimageanalysis.org/) developed at the Institut Pasteur. Icy is a next-generation, user-friendly software offering powerful acquisition, visualisation, annotation and analysis algorithms for 5D bioimaging data, together with unique automation/scripting capabilities (notably via its graphical programming interface) and tight integration with existing software (e.g. ImageJ, Matlab, Micro-Manager). 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=2495657&course-title=Image%20Analysis%20for%20Biologists).'' 2018-07-09 08:30:00 UTC 2018-07-11 16:00:00 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 [] Researchers who are applying or planning to apply image analysis in their researchGraduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Image Analysis for Biologists

    24 - 26 June 2019

    Cambridge, United Kingdom

    Elixir node event
    Image Analysis for Biologists https://tess.elixir-europe.org/events/image-analysis-for-biologists-5372065b-76aa-42d1-b91f-17ef321e2e8d This course will focus on computational methods for analysing cellular images and extracting quantitative data from them. The aim of this course is to familiarise the participants with computational image analysis methodologies, and to provide hands-on training in running quantitative analysis pipelines. On day 1 we will introduce principles of image processing and analysis, giving an overview of commonly used algorithms through a series of talks and practicals based on [Fiji](http://fiji.sc/), an extensible open source software package. On day 2, we will cover time series processing and cell tracking using [TrackMate](http://imagej.net/TrackMate) and advanced image segmentation using [Ilastik](http://ilastik.org/). Additionally, in the afternoon we will run a study design and data clinic (sign up will be required) for participants that wish to discuss their experiments. On day 3, we will describe the open [Icy platform](http://icy.bioimageanalysis.org/) developed at the Institut Pasteur. Icy is a next-generation, user-friendly software offering powerful acquisition, visualisation, annotation and analysis algorithms for 5D bioimaging data, together with unique automation/scripting capabilities (notably via its graphical programming interface) and tight integration with existing software (e.g. ImageJ, Matlab, Micro-Manager). 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=2871473&course-title=Image%20Analysis%20for%20Biologists).'' 2019-06-24 08:30:00 UTC 2019-06-26 16:00:00 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 [] Researchers who are applying or planning to apply image analysis in their researchGraduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Bioinformatics for Principal Investigators

    16 - 17 September 2019

    Cambridge, United Kingdom

    Elixir node event
    Bioinformatics for Principal Investigators https://tess.elixir-europe.org/events/bioinformatics-for-principal-investigators-295ef296-f98b-471c-842e-32786d63fd1e The aim of this workshop is to provide principal investigators with an introduction to the challenges of working with biological data and to the best practices, and tools, needed to perform bioinformatics research effectively and reproducibly. On day 1, we will cover the importance of experimental design, discuss the challenges associated with (i) the analysis of high-throughput sequencing data (utilising RNA-seq as a working example) and (ii) the application of machine learning algorithms, as well as issues relating to reusability and reproducibility. On day 2, we will put into practice concepts from day 1, running a RNA-seq data analysis pipeline, going from raw reads through differential expression analysis and the interpretation of downstream analysis results. Challenges encountered at each step of the analytical pipeline will be discussed. Please note that day 2 is optional. 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=3070941&course-title=Bioinformatics%20for%20Principal%20Investigators).'' 2019-09-16 08:30:00 UTC 2019-09-17 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 [] Principal Investigators from the University of CambridgeInstitutions and other external Institutionswho are using or planning to use bioinformatics in their research workshops_and_courses [] HDRUK
  • 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 THIS EVENT IS NOW FULLY BOOKED! 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

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