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2 events found

Content provider: ELIXIR Hungary 

  • RNA Seq Data Analysis by using the Galaxy platform

    17 - 18 November 2018

    Debrecen, Hungary

    RNA Seq Data Analysis by using the Galaxy platform https://tess.elixir-europe.org/events/rna-seq-data-analysis-by-using-the-galaxy-platform Galaxy is an open source, web-based platform for data intensive biomedical research (more info here: https://usegalaxy.org/). Galaxy is accessible on various servers word-wide for academic researchers. RNA Sequencing is one of the most frequently used method to charachterize the transcriptional status of a cell or a system. Galaxy provides a straightforward, GUI (Graphical User Inferface) based access to a wide series of bioinformatic programs needed for genomic investigations. The Course is part of a longer series of bioinformatic training events that covers various topics from very basics of bioinformatics and GUI based tools to unix based programs and R programming.  Trainer of the course is Dr Beata Scholtz. The course is free but registration is mandatory. The language of the course is English. This will be a two days, hands on computer course. Zero prior bioinformatic knowledge is needed.  We inviting life science researchers who are dealing with genomic datasets and would like to understand basic concepts of NGS data analysis. The course will be run on local computers while Galaxy itself runs on servers, in this case our server.  Venue: This is a computer room of the Medical Faculty located in the Dean's Office Building Shared with the International Student Coordination Center. The place can be easily accessed by Tram no 1, "Egyetem tér" station.  This building is on the left of the main building, the second building on the left of the university church. (On GoogleMaps is called OEC Erasmus Office) GPS coordinates: 47°33'16.3"N 21°37'26.4"E, alternative format: 47.554517, 21.624006 We plan to provide coffee and refreshments including a sandwich lunch.  By the end of the course attendees should understand basic steps of NGS data analysis on RNA Seq and CHIP-Seq datasets.  We can not provide you lodging but if needed use booking.com for your convenience.  Programme: 2018. 11. 17.  Saturday 9:30-10:00 Coffee and Welcome! 10:00-12:00 Introduction to Galaxy.  Loading data into Galaxy from different sources.  Quality assessment: FASTQC (Colon cc data). Data preprocessing-quality correction: Trimmomatic.  Alignment to reference sequence. 12:00-13:00 Lunch break 13:00- 15:00 Post-alignment quality control.  Build a workflow. Transcript and gene level differential expression.   15:00-15:30 Coffee break 15:30-17:00 Transcript and gene level differential expression (continued). 2018. 11. 18.  Sunday 9:00-10:00 Transcript and gene level differential expression (continued). 10:00-10:30 Coffee break 10:30-12:30 Mutation analysis of RNAseq data.  Peeking out of Galaxy: annotation of mutations (VEP).   12:30-13:30  Lunch break 13:30-14:30 Visualization of aligned data in Integrated Genomic Viewer.  Single nucleotide variant quality assessment in IGV. Transcript assembly visualization in IGV (Sashimi plot). 14:30-15:00 Coffee Break 15:30-17:00 ChIP-seq data analysis in Galaxy. 2018-11-17 08:00:00 UTC 2018-11-18 16:30:00 UTC ELIXIR Hungary OEC ERASMUS Office , Debrecen, Hungary OEC ERASMUS Office Debrecen Hungary 4032 [] [] [] workshops_and_courses [] []
  • Software Carpentry - First Hungarian Carpentry Workshop

    1 - 2 December 2018

    Debrecen, Hungary

    Software Carpentry - First Hungarian Carpentry Workshop https://tess.elixir-europe.org/events/software-carpentry-first-hungarian-carpentry-workshop R programing is one of the most comprehensive tool used for data analysis by life scientists. It is a framework to use hundreds of free academic data analysis tools. While anyone can learn is and use it, learning it from experienced users is of great advantage.We are organizing the First Hungarian Software Carpentry Course as a full week-end, two days, hands-on intro into R programming for novices. The Course is part of a longer series of bioinformatic training events that covers various topics from very basics of bioinformatics and GUI based tools to unix based programs and R programming. The Course is part of a longer series of bioinformatic training events that covers various topics from very basics off bioinformatics and GUI based tools to unix based programms and R programming.  The course is free but registration is mandatory. The language of the course is English. This will be a two days, hands on computer course. Zero prior bioinformatic knowledge is needed.  We encourage life science researchers from any field who are dealing with larger datasets and would like to immerse into Data Handling and R programming.  We encourage you to bring your own laptop in order to use your most friendly environment. If you need a laptop to be provided, please contact the local organizer (balintblaszlo at gmail dot com). Venue: This is a seminar room of the Medical Faculty located in the Dean's Office Building Shared with the International Student Coordination Center. The place can be easily accessed by Tram no 1, "Egyetem tér" station.  The second building on the left of the university church.  GPS coordinates: 47°33'16.3"N 21°37'26.4"E, alternative format: 47.554517, 21.624006 We plan to provide coffee and refreshments including a sandwich lunch.  By the end of the course attendees should understand best practices of Data Handling and have a basic knowledge in using R for data analysis and data visualization. Before registering please complete the preregistering survey here. Further details about the workshop on the Github here. We can not provide you lodging but if needed use booking.com for your convenience.  2018-12-01 08:00:00 UTC 2018-12-02 16:30:00 UTC ELIXIR Hungary OEC ERASMUS Office , Debrecen, Hungary OEC ERASMUS Office Debrecen Hungary 4032 [] [] [] workshops_and_courses [] []
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