Event types: Workshops and courses
Training Course on RNA-Seq data analysis
18 - 20 July 2017
Milano, ItalyTraining Course on RNA-Seq data analysis https://elixir-iib-training.github.io/website/2017/07/18/RNA-seq-Milano.html https://tess.elixir-europe.org/events/training-course-on-rna-seq-data-analysis The course will provide students with theoretical and practical knowledge on how to perform bioinformatic analyses of RNA-Seq data, mainly aimed at the identification of genes differentially expressed across different conditions. 2017-07-18 14:00:00 UTC 2017-07-20 12:00:00 UTC Allegra Via, Giulio Pavesi, Federico Zambelli, Matteo Chiara Computer Room (aula Calcolo) Department of Biosciences, University of Milan, Via Celoria 26, Milano, Italy Computer Room (aula Calcolo) Department of Biosciences, University of Milan, Via Celoria 26 Milano Città Metropolitana di Milano Italy RNA-Seq University of Milan, Milan, Italy email@example.com, firstname.lastname@example.org ELIXIR Italy PhD Students or young researchers in molecular biology and/or genetics with little or no background in bioinformatics. 30 workshops_and_courses  RNA-SeqGalaxy
Linux shell scripting for high-throughput biological data processing on supercomputers
16 - 17 January 2018
Roma, ItalyLinux shell scripting for high-throughput biological data processing on supercomputers https://elixir-iib-training.github.io/website/2018/01/16/Linux-Shell-Roma.html https://tess.elixir-europe.org/events/linux-shell-scripting-for-high-throughput-biological-data-processing-on-supercomputers An unprecedented amount of biomedical data have been produced and stored in the last years. Managing such biological big data is often not affordable without high-performance computing architectures, needed to analyze and process large-scale datasets. Running high-throughput (HTP) bioinformatics data pipelines on supercomputing machines requires advanced Linux shell command line and scripting skills. Most scientists working with such data often lack such skills or have acquired them by self-learning without becoming fully independent and fluent. This may have repercussions on the quality, reproducibility, and reliability of the analyses. In this two-day course, we will introduce the Linux shell and, on day one, we will show how to navigate and work with files and directories, how to combine commands to do new things, how to perform the same actions on many different files, how to filter and selectively extract data from tables, and how to find objects in files. Moreover, we will show how to connect to a remote supercomputer and how to utilise a supercomputing environment to analyse big amount of biological data, run simple shell scripts and bioinformatics pipelines. Day 2 will be wholly practical. Participants are invited to let us know in advance which are the typical file format(s) they have to deal with (e.g. fastq, table, etc), the typical processes they need to perform on them (e.g. filtering, ordering, etc.) and the typical programs they need to run (e.g. bwa, hisat2, etc.) so that we can prepare tailored practicals. Participants are also welcome to come to the course with one or more files they wish to work with, provided they do not exceed a given size. 2018-01-16 09:00:00 UTC 2018-01-17 18:00:00 UTC Allegra Via (ELIXIR-IIB Training Coordinator, IBPM-CNR, IT) Loredana Le Pera (ELIXIR-IIB Training Team, IBIOM-CNR, IT) Tiziana Castrignanò (SCAI Department, CINECA, Roma, IT) Via dei Tizii, 6B, Roma, Italy Via dei Tizii, 6B Roma Città Metropolitana di Roma Italy 00185 Data mining Bioinformatics CINECA email@example.com  Biologistsbeginner bioinformaticiansBiomedical researchersPhD Students or young researchers in molecular biology and/or genetics with little or no background in bioinformatics. 20 workshops_and_courses first_come_first_servedregistration_of_interest Unix/LinuxHTP dataShell scriptManaging and Processing datasupercomputer
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