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  • H3ABioNet 2018 Genotyping Chip Data Analysis and GWAS lecture series - Lecture 1

    20 August 2018

    H3ABioNet 2018 Genotyping Chip Data Analysis and GWAS lecture series - Lecture 1 https://tess.elixir-europe.org/events/h3abionet-2018-genotyping-chip-data-analysis-and-gwas-lecture-series #### Computational requirements for running the H3ABioNet GWAS workflows The first of a series of seven online lectures for Genome Wide Association Studies (GWAS) will cover the technical requirements for setting up a your computational environment for running the H3ABioNet GWAS workflows. In this inaugural lecture of the series, Prof. Hazelhurst will cover the the following topics: Installing and using Nextflow Installing and using Github Use of containers for packaging and running tools Pulling the GWAS pipeline from Github and running it As this lecture aims to provide attendees with an environment to the run the H3ABioNet GWAS workflow at their own pace, there are some preliminary software requirements: Either a Linux machine or an Apple running macOS Ideally you should have machine with at least 2-4 cores and 8GB of RAM. Java 8 Nextflow installed (see installation instructions at https://www.nextflow.io/) Python 3 Please also install either Docker OR the following dependencies using pip3: Pandas, Matplotlib, Openpyxl, SciPy, NumPy PLINK 1.9 [Please also refer to the following documentation to obtain the H3ABioNet GWAS workflow]: https://github.com/h3abionet/h3agwas/blob/master/README.md 2018-08-20 15:00:00 UTC 2018-08-20 16:30:00 UTC H3ABioNet Population genomics Genotyping experiment Computational biology Workflows GWAS study Bioinformatics H3ABioNet info@h3abionet.org H3ABioNet Anyone intersted in GWAS and using the H3Africa genotyping chipAnyone who wants to learn more about GWAS workshops_and_courses [] NextflowDockerH3ABioNetGWASWorkflowsGenotyping array analysis bioinformaticsAfricaPopulation GenomicsReproducible ScienceH3Africa genotyping arrayHigh performance computingCloud computingGWAS workflowH3ABioNet GWAS 2018 Lecture Series
  • Workshop on Research Objects (RO2018)

    29 October 2018

    Amsterdam, Netherlands

    Workshop on Research Objects (RO2018) https://tess.elixir-europe.org/events/workshop-on-research-objects-ro2018 In this workshop we will explore recent advancements in Research Objects and publishing of research data. **Deadlines**: * 2018-07-01 Abstracts due * 2018-07-15 Research articles and software/data articles due A travel bursary is available for accepted speakers, sponsored by [BioExcel](http://bioexcel.eu) (H2020-675728) ## Research Objects Scholarly Communication has evolved significantly in recent years, with an increasing focus on **Open Research**, [FAIR](https://doi.org/10.1038/sdata.2016.18)data sharing and community-developed open source methods. A question remains on how to publish, archive and explore digital research outputs. A number of initiatives have begun to explore how to package and describe research outputs, data, methods, workflows, provenance and structured metadata, reusing existing Web standards and formats. Such efforts aim to address the challenges of structuring multi-part research outcomes with their context, handling distributed and living content and porting and safely exchange what we collectively can call **Research Objects** between platforms and between researchers. In the workshop **RO2018**, part of [IEEE eScience 2018](https://www.escience2018.com) in Amsterdam, we will explore recent advancements in Research Objects and publishing of research data with peer-reviewed presentations, invited talks, short demos, lightning talks and break-out sessions to further build relationships across scientific domains and RO practitioners. ## Call for Papers RO2018 welcomes submissions of academic abstracts (1-2 pages), data/software articles (3-6 pages) and short research articles (4-8 pages) on cross-cutting case studies or specific research on topics including, but not limited to: FAIR metrics; platforms, infrastructure and tools; lifecycles; access control and secure exchange; examples of exploitation and application; executable containers; metadata, packaging and formats; credit, attribution and peer review; dealing with scale and distribution; driving adoption within current scholarly communications and alignments with community efforts; and domain-specific and cross-domain Research Objects. Further details on submitting: [http://www.researchobject.org/ro2018/submitting-to-ro2018/](http://www.researchobject.org/ro2018/submitting-to-ro2018/) ## Timeline 2018-07-01 Abstracts due 2018-07-15 Research articles and software/data articles due 2018-08-31 Notification of acceptance 2018-08-31 IEEE eScience 2018 early-bird registration deadline 2018-10-29 RO2018 workshop at IEEE eScience 2018 2018-10-29 09:00:00 UTC 2018-10-29 17:00:00 UTC The University of Manchester, researchobject.org, IEEE Mövenpick Hotel Amsterdam City Centre, 11, Piet Heinkade, Amsterdam, Netherlands Mövenpick Hotel Amsterdam City Centre, 11, Piet Heinkade Amsterdam Amsterdam Netherlands Workflows Software engineering Ontology and terminology Informatics Data submission, annotation and curation Data identity and mapping Data integration and warehousing Data architecture, analysis and design Data management Computer science [] For any questions, email the Workshop Organizers at ro2018@easychair.org BioExcel [] workshops_and_courses [] digital archivesdata repositorylinked dataWorkflows
  • Revolutionizing Next-Generation Sequencing (3rd edition)

    25 - 26 March 2019

    Antwerpen, Belgium

    Revolutionizing Next-Generation Sequencing (3rd edition) https://tess.elixir-europe.org/events/revolutionizing-next-generation-sequencing-3rd-edition After two successful editions (Jan 2015, Leuven and March 2017, Antwerp), VIB is proud to present the third edition of this Tools & Technologies conference. VIB believes that the revolutionary discoveries enabled by NGS are not yet at its zenith and that the technology can go much further. During this 3rd edition VIB will bring together over 30 top scientists and technology developers form both industry and academia. They will discuss emerging tools and approaches in several sessions such as: • Long reads, Genome Structure and Mapping • Epigenomics • Metagenomics • Spatial transcriptomics • Population Scale and Clinical Sequencing • Single Cell Sequencing • Emerging technologies In addition to a great scientific and technology program, the conference will provide ample opportunities to network during the breaks, poster sessions and the conference dinner. Also young scientists are encouraged to showcase their own work to the international research community by oral or poster presentation! Information for poster submissions: The format for your poster should be: A0 (841 x 1189 mm / 33.1 x 46.8 in), portrait orientation Deadlines: • Early Bird: 11/02/2019 • Late Registration: 11/03/2019 • Abstract deadline: 21/01/2019 2019-03-25 08:00:00 UTC 2019-03-26 18:00:00 UTC VIB Conferences BluePoint Antwerpen, 9, Filip Williotstraat, Antwerpen, Belgium BluePoint Antwerpen, 9, Filip Williotstraat Antwerpen Antwerpen Belgium 2600 Genomics Genotype and phenotype Genotyping experiment Epigenomics Epigenetics Metagenomics Metagenomic sequencing Transcriptomics Sequencing Population genetics Population genomics Mapping [] Evy Vierstraete +32 9 244 66 11 conferences@vib.be BioradBiokeLexogenAnalisBio-techneBGI [] 350 meetings_and_conferences [] Genome Structure Genome MappingEpigenomicsMetagenomicsSpatial transcriptomicsPopulation Scale clinical sequencingSequencingSingle Cell Sequencing

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