Materials - TeSS (Training eSupport System)

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- Scientific topic
- Data management112
- Metadata management112
- Research data management (RDM)112
- Algorithms93
- Computer programming93
- Data structures93
- Programming languages93
- Software development93
- Software engineering93
- FAIR data79
- Findable, accessible, interoperable, reusable data79
- Exomes46
- Genome annotation46
- Genomes46
- Genomics46
- Personal genomics46
- Synthetic genomics46
- Viral genomics46
- Whole genomes46
- Comparative transcriptomics44
- Transcriptome44
- Transcriptomics44
- Biodiversity40
- Bayesian methods36
- Biological sequences36
- Biostatistics36
- Descriptive statistics36
- Gaussian processes36
- Inferential statistics36
- Markov processes36
- Multivariate statistics36
- Probabilistic graphical model36
- Probability36
- Sequence analysis36
- Sequence databases36
- Statistics36
- Statistics and probability36
- Metagenomics33
- Shotgun metagenomics33
- Bioinformatics30
- Computational ecology30
- Ecoinformatics30
- Ecological informatics30
- Ecology30
- Ecosystem science30
- Community analysis29
- Environmental microbiology29
- Microbial ecology29
- Microbiome29
- Molecular community analysis29
- Bottom-up proteomics25
- Discovery proteomics25
- MS-based targeted proteomics25
- MS-based untargeted proteomics25
- Metaproteomics25
- Peptide identification25
- Protein and peptide identification25
- Proteomics25
- Quantitative proteomics25
- Targeted proteomics25
- Top-down proteomics25
- Assembly23
- Sequence assembly23
- Antimicrobial stewardship20
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- Epigenomics13
- Applied ontology12
- DNA variation12
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- Genomic variation12
- Mutation12
- Ontologies12
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- Ontology and terminology12
- Ontology relations12
- Polymorphism12
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- Terminology12
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- Operation
- Data handling42
- File handling42
- File processing42
- Processing42
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- Utility operation42
- Data analysis13
- Data extraction8
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- Query7
- Query and retrieval7
- Data visualisation6
- Mathematical modelling6
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- Molecular visualisation6
- Plotting6
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- Data management planning4
- Database search4
- Normalisation4
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- Standardisation4
- Standardisation and normalisation4
- Data brokering2
- Data deposition2
- Data deposition brokering2
- Data formatting2
- Data reformatting2
- Data submission2
- Database deposition2
- Database submission2
- Design2
- File format conversion2
- File formatting2
- File reformatting2
- Format conversion2
- Alignment1
- Alignment construction1
- Alignment generation1
- Allele calling1
- Annotation1
- Data filtering1
- Exome variant detection1
- Functional genome annotation1
- Genome annotation1
- Genome variant detection1
- Germ line variant calling1
- Image analysis1
- Metagenome annotation1
- Mutation detection1
- Ontology browsing1
- Ontology visualisation1
- RNA-Seq analysis1
- Read pre-processing1
- Sequence classification1
- Sequence filtering1
- Sequence read pre-processing1
- Somatic variant calling1
- Structural genome annotation1
- Variant calling1
- Variant mapping1
- de novo mutation detection1
- rRNA filtering1
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- Tool
- Galaxy278
- FastQC33
- MultiQC23
- SAMtools22
- BEDTools16
- scikit-learn16
- BWA15
- Data Stewardship Wizard15
- Falco13
- SCANPY13
- DeepTools12
- fastp12
- BLAST11
- Cutadapt11
- taxonomy_krona_chart10
- GEMINI9
- ggplot29
- Bandage8
- FASTX-Toolkit8
- FreeBayes8
- NanoPlot8
- QUAST8
- RStudio8
- JBrowse7
- RDMkit7
- STAR7
- Trimmomatic7
- BamTools6
- Biopython6
- Trim Galore6
- COPASI5
- Flye5
- HISAT25
- MetaPhlAn5
- Minimap25
- MuSiC suite: PoPMuSiC, HoTMuSiC, and SNPMuSiC5
- Salmon5
- Unicycler5
- anndata5
- kraken25
- BUSCO4
- Bowtie 24
- Chipster4
- DESeq24
- Diamond4
- European Nucleotide Archive (ENA)4
- Galaxy Image Analysis4
- KrakenTools4
- MACS4
- MaxQuant4
- Ontology Lookup Service4
- Workflow4Metabolomics4
- annotatemyids4
- bx-python4
- mothur4
- scikit-image4
- seqtk4
- snpEff4
- BCFtools3
- Bracken3
- Bwa-mem23
- Clustal 1.8 (Clustal W, Clustal X)3
- DropletUtils3
- GOseq3
- Galactic Circos3
- GraPhlAn3
- MAFFT3
- MSstats3
- Newick Utilities3
- R3
- RSeQC3
- SeqCode3
- SortMeRNA3
- Stacks3
- StringTie3
- Zooma3
- export2graphlan3
- gffcompare3
- humann3
- msConvert3
- xcms3
- Bakta2
- Bowtie2
- BridgeDbR2
- Cardinal2
- CellProfiler2
- ChIPpeakAnno2
- Combine Metaphlan and HUMAnN2
- FASTQE2
- FastTree2
- GECKO2
- GOEnrichment2
- GenomeScope 2.02
- HUMAnN22
- Heinz2
- InterMine2
- InterMineR2
- InterProScan (EBI)2
- JBrowse 22
- MAGeCK2
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- Standard database or policy
- FAIRsharing4
- European Nucleotide Archive3
- Common Workflow Language2
- Minimum Information about Plant Phenotyping Experiment2
- OBO Foundry2
- Ontology Lookup Service2
- PRoteomics IDEntifications database2
- RDA DMP Common Standard for Machine-Actionable Data Management Plans2
- Wheat Data Interoperability Guidelines 1
- Bioschemas1
- Cellosaurus1
- Chemical Entities of Biological Interest1
- Crop Ontology1
- Datanator1
- Ensembl1
- FAIR sharing1
- IUPAC International Chemical Identifier1
- Identifiers.org Registry1
- Investigation Study Assay JSON1
- Investigation Study Assay Tabular1
- MDL molfile Format1
- ModelArchive1
- Multi-Crop Passport Descriptors1
- Plant Phenotype Experiment Ontology1
- Research Object Crate1
- Resource Identification Portal 1
- STRING: functional protein association networks1
- Schema.org1
- Search Tool for Interactions of Chemicals1
- Simplified Molecular Input Line Entry Specification Format1
- The European Genome-phenome Archive1
- The Human Metabolome Database1
- The Observational Medical Outcomes Partnership Common Data Model1
- UniProt Knowledgebase1
- Wheat Trait Ontology1
- Wikidata1
- Worldwide Protein Data Bank1
- Zenodo 1
- data.eNanoMapper.net1
- eNanoMapper Ontology1
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- Content provider
- GTN556
- SIB Swiss Institute of Bioinformatics79
- DTLS - Dutch Techcentre For Life Sciences32
- Bioinformatics and Biomathematics Training Hub30
- VIB Training & Conferences20
- ELIXIR13
- CINECA PROJECT11
- ELIXIR Estonia10
- CSC - IT Center for Science9
- EMBL-ABR9
- IFB French Institute of Bioinformatics9
- NBIS9
- Department of Bioinformatics - BiGCaT, Maastricht University6
- ELXIR-UK DaSH6
- Barcelona Supercomputing Center (BSC)5
- ELIXIR Luxembourg5
- ELIXIR Norway5
- ELIXIR-SI eLearning Platform (EeLP)5
- Glittr.org5
- Danish National Health Data Science Sandbox4
- NanoCommons4
- University of Cambridge Bioinformatics Training4
- COG-Train3
- Centre for Genomic Regulation (CRG)3
- ELIXIR Portugal3
- European Bioinformatics Institute (EBI)3
- University of Edinburgh3
- BioData.pt2
- InterMine2
- Pattern Institute2
- PerMedCoE2
- de.NBI2
- Cloud-SPAN1
- ELIXIR Slovenia1
- EOSC4Cancer1
- FAIRsharing1
- Health-RI1
- Novo Nordisk Foundation Center for Protein Research1
- SciLifeLab1
- Seqera1
- Software Sustainability Institute1
- The Carpentries1
- VIB Conferences1
- WikiPathways1
- eNanoMapper1
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- Keyword
- Galaxy Server administration66
- Development in Galaxy45
- Single Cell38
- biodiversity36
- FAIR33
- microgalaxy33
- Foundations of Data Science31
- Ecology30
- Statistics and machine learning30
- Transcriptomics30
- jupyter-notebook29
- training29
- Microbiome28
- Contributing to the Galaxy Training Material25
- FAIR Data, Workflows, and Research25
- Proteomics24
- FAIR principles23
- data management22
- Metadata21
- FAIR data20
- Genome Annotation20
- ansible20
- Assembly19
- Data management18
- Using Galaxy and Managing your Data18
- git-gat18
- Climate17
- Data analysis16
- HemaFAIR16
- Introduction to Galaxy Analyses16
- Open Science16
- Research Data Management16
- Teaching and Hosting Galaxy training16
- fair16
- interactive-tools16
- data stewardship15
- earth-system15
- Data management planning13
- Data sharing13
- Epigenetics13
- bioinformatics13
- metagenomics13
- work-in-progress13
- Bioinformatics12
- Data reuse12
- Roslin Institute12
- paper-replication12
- prokaryote12
- CONVERGE11
- European research projects11
- MIGHTS11
- Ontologies11
- Sequence analysis11
- Variant Analysis11
- DMP10
- Python10
- Standards10
- genes and genomes10
- ocean10
- plants10
- research data management10
- transcriptomics10
- ELIXIR-CONVERGE9
- Metabolomics9
- cyoa9
- label-free9
- Data management plan8
- Evolution8
- FAIR Data8
- Galaxy Community Building8
- assembly8
- data visualisation8
- español8
- gmod8
- medicine and health8
- nanopore8
- Babraham Institute7
- Clinical data7
- DDA7
- Data Management Plan7
- EBV dataset7
- EBV workflow7
- Interoperability7
- R7
- Rare Diseases & Research7
- Reproducibility7
- SARS-CoV-27
- Workflows7
- dmp7
- ecology7
- elixir7
- genomics7
- jbrowse17
- metabarcoding7
- next generation sequencing7
- programming7
- reproducibility7
- 16S6
- Computational modelling6
- DMP tools6
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- Competency level
- Beginner
- Not specified3040
- Intermediate283
- Advanced50
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- Licence
- Creative Commons Attribution 4.0 International694
- License Not Specified110
- Creative Commons Attribution Share Alike 4.0 International48
- Creative Commons Attribution Non Commercial Share Alike 4.0 International19
- Other (Not Open)17
- MIT License11
- Creative Commons Attribution Non Commercial No Derivatives 4.0 International10
- Other (Non-Commercial)8
- Creative Commons Zero v1.0 Universal6
- Other (Attribution)6
- Creative Commons Attribution 1.0 Generic5
- Creative Commons Attribution Non Commercial 4.0 International5
- Apache License 2.04
- Creative Commons Attribution No Derivatives 4.0 International3
- Other (Open)3
- GNU General Public License v3.0 only2
- Creative Commons Attribution Non Commercial 2.0 Generic1
- GNU General Public License v2.0 only1
- Open Data Commons Attribution License v1.01
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- Target audience
- Students424
- Galaxy Administrators111
- Researchers52
- Instructors49
- Biologists34
- PhD candidate26
- Life Science Researchers23
- Data stewards22
- PhD candidates20
- bioinformaticians18
- Bioinformaticians17
- Data Scientist16
- Data managers16
- Scientists16
- PhD students15
- Data Managers14
- PhD Students12
- Data Scientists11
- Researcher10
- Researcher in life sciences10
- Clinicians8
- Computational biologists8
- Research Scientists8
- Beginner7
- Bench biologists7
- Biomedical Researchers7
- Life scientists7
- Master students7
- biologists7
- Biomedical researchers6
- Trainers6
- data stewards6
- modelers6
- Chemists5
- PI5
- Patient Advocates 5
- rare disease patients representatives4
- Anyone wishing to use bioinformatics resources to find basic information about a virus.4
- Biologists with little or no prior computational experience4
- Laboratory technicians4
- Scientific community4
- Training Designers4
- Training instructors4
- Veterinarians4
- project manager4
- researchers4
- Academia/ Research Institution3
- Beginners3
- Bioinformatician3
- Bioinformatician, Bioanalysts3
- Biologists, Genomicists, Computer Scientists3
- Curators3
- Data Steward3
- Graduate students3
- Healthcare3
- Industry3
- Life Scientists3
- Non-Profit Organisation3
- Policy makers3
- Post Docs3
- Post-Doctoral Fellows3
- beginner bioinformaticians3
- biocurators3
- data steward / data manager3
- life scientists3
- software developers, bioinformaticians3
- Anyone interested in data standardization and/or the ontology approach (i.e. public, end users).2
- Bioinformaticians, Biologists with little or no prior computational experience.2
- Clinical Scientists2
- Data Manager2
- Database users2
- Graduate Students2
- Ontologists2
- PhD2
- PhD Scholars, Graduates and Post Graduates, Professors, Associate Professors, Assistant Professors, Bio instruments Professionals, Bio-informatics Professionals, Directors, CEO’s of Organizations, Supply Chain companies, Manufacturing Companies, Software development companies, Research Institutes and members2
- Postdocs and Staff members2
- Principal Investigators (PIs)2
- Professor2
- Research scientists2
- Staff2
- Technicians2
- Undergraduate students2
- computational scientists2
- data managers2
- database managers2
- plant researchers2
- policy officer2
- post-docs2
- All postgraduates1
- Any students, postdocs or RAs who have an interest in bioinformatics and who intend to carry out statistical analysis of their experimental data using R. This two day course is planned to be a very gentle introduction to the very basic concepts of R.1
- Any students, postdocs or RAs who have an interest in bioinformatics and who intend to conduct their own analyses on a Linux platform. Those intending to register for the upcoming Introduction to HPC course are very strongly encouraged to attend this short (two morning) course and it should be seen as a prerequisite for later courses to be offered on ChIP-Seq analysis and command line/Galaxy implementations of NGS workflows.1
- Any students, postdocs or RAs who have an interest in programming and who intend to carry out computational analysis of their experimental data. Perl is often used for preparing input files for more specialized software such as R, and also to post-process the output from R and various other bioinformatics tools. It is a glue language allowing you to build pipelines of analyses of arbitrary complexity. This two day course is planned to be a gentle introduction to the basic concepts of Perl and will also introduce you to the BioPerl library of modules.1
- Anyone1
- Anyone dealing with cell lines with no or little knowledge of the Cellosaurus resource.1
- Anyone wishing to interpret graphs showing the progression of COVID-19.1
- Beginner informatics1
- Beginners in statistics1
- Biochemists1
- Bioimage Analysts1
- Biologists and bioinformaticians1
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- Author
- Helena Rasche94
- Bérénice Batut93
- Saskia Hiltemann53
- SIB Swiss Institute of Bioinformatics49
- Björn Grüning42
- Simon Gladman34
- Yvan Le Bras26
- Nate Coraor25
- Nicola Soranzo24
- Anton Nekrutenko23
- John Chilton23
- Subina Mehta20
- Marie Josse19
- Wendi Bacon18
- Katarzyna Kamieniecka17
- Krzysztof Poterlowicz17
- Anne Fouilloux16
- Anthony Bretaudeau16
- Fotis E. Psomopoulos15
- Mehmet Tekman15
- Paul Zierep15
- Bazante Sanders14
- Mijke Jetten14
- Julia Jakiela13
- Katherine Do13
- Maria Doyle13
- Monique Zahn13
- The Carpentries13
- Anup Kumar11
- Pavankumar Videm11
- Cristóbal Gallardo10
- Dave Clements10
- Donny Vrins10
- James Johnson10
- Khaled Jum'ah10
- Martin Čech10
- Celia van Gelder9
- Delphine Lariviere9
- Egon Willighagen9
- Marius van den Beek9
- Anika Erxleben8
- Daniel Blankenberg8
- Helen Brown8
- Kaivan Kamali8
- Lucille Delisle8
- Personalized Health Informatics Group8
- Robert Andrews8
- Sergio Martínez Cuesta8
- Wandrille Duchemin8
- Alexander Botzki7
- Branka Franicevic7
- Diana Pilvar7
- Joachim Wolff7
- Laura Cooper7
- Patricia Palagi7
- Pratik Jagtap7
- Wolfgang Maier7
- Allegra Via6
- Andrew Mason6
- Anna Syme6
- Anne Pajon6
- Clemens Blank6
- Coline Royaux6
- ELIXIR Goblet Train the Trainers6
- Melanie Föll6
- Michael Charleston6
- Morgan Howells6
- Philippe Le Mercier6
- Philippe Rocca-Serra6
- Sara Morsy6
- Valentin Loux6
- Xenia Perez Sitja6
- Alex Ostrovsky5
- Alexandre Cormier5
- Dechen Bhuming5
- Deepak Tanwar5
- Eija Korpelainen5
- Emma Leith5
- Erwan Corre5
- Federico Bianchini5
- Geert van Geest5
- Gildas Le Corguillé5
- Heleri Inno5
- Hélène Chiapello5
- Kellie Snow5
- Korneel Hens5
- Laura Leroi5
- Mira Kuntz5
- Munazah Andrabi5
- Nick Juty5
- Polina Polunina5
- Priit Adler5
- Saskia Lawson-Tovey5
- Solenne Correard5
- Stéphanie Robin5
- Alireza Khanteymoori4
- Amirhossein Naghsh Nilchi4
- Beatriz Serrano-Solano4
- Bruna Piereck4
- Cyril Monjeaud4
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- Contributor
- Saskia Hiltemann473
- Helena Rasche411
- Björn Grüning333
- Bérénice Batut200
- Nicola Soranzo157
- Martin Čech116
- Cristóbal Gallardo90
- Niall Beard83
- Anthony Bretaudeau77
- Nate Coraor66
- Wendi Bacon65
- Armin Dadras56
- Gildas Le Corguillé55
- William Durand54
- Simon Gladman50
- Marius van den Beek45
- Mehmet Tekman44
- Lucille Delisle42
- Teresa Müller42
- Yvan Le Bras42
- Marie Josse36
- Pavankumar Videm36
- Beatriz Serrano-Solano29
- Wolfgang Maier26
- Maria Doyle22
- Anne Fouilloux21
- Anup Kumar20
- Julia Jakiela20
- Khaled Jum'ah17
- Tristan Reynolds17
- Melanie Föll16
- Petros Kountouris16
- Pratik Jagtap16
- Subina Mehta16
- Paul Zierep15
- Simon Bray15
- Deepti Varshney14
- Donny Vrins14
- Marisa Loach14
- Bazante Sanders13
- David López13
- Mira Kuntz13
- Timothy J. Griffin13
- Anton Nekrutenko12
- Delphine Lariviere12
- Matthias Bernt12
- Pablo Moreno12
- Daniela Schneider11
- Gianmauro Cuccuru11
- Katarzyna Kamieniecka11
- Mélanie Petera11
- Peter van Heusden11
- Paul De Geest9
- Elin Kronander8
- John Chilton8
- Kaivan Kamali8
- Verena Moosmann8
- Wolmar Nyberg Åkerström8
- Amirhossein Naghsh Nilchi7
- Anna Syme7
- Florian Heyl7
- Hans-Rudolf Hotz7
- Katherine Do7
- Leonid Kostrykin7
- Markus Englund7
- Mattias Strömberg7
- Melissa Burke7
- Morgan Howells7
- Niclas Jareborg7
- Stephan Nylinder7
- Tomas Klingström7
- Yvonne Kallberg7
- Alexandre Cormier6
- Dave Clements6
- Ekaterina Polkh6
- Erik Hedman6
- Mallory Freeberg6
- Sabine Österle6
- Solenne Correard6
- Alex Ostrovsky5
- Alireza Khanteymoori5
- Bert Droesbeke5
- Catherine Bromhead5
- Diana Chiang Jurado5
- John Davis5
- Stéphanie Robin5
- Vassilios Ioannidis5
- Vicky Schneider5
- Andrea Bagnacani4
- Clea Siguret4
- Coline Royaux4
- Daniel Sobral4
- Dave B.4
- Eli Chadwick4
- Enis Afgan4
- Fotis E. Psomopoulos4
- Phil Reed4
- Pinar Alper4
- Sotiroula Chatzimatthaiou4
- Tim Beck4
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- Resource type
- e-learning457
- slides141
- Training materials51
- Video47
- lessons35
- Presentation33
- Slidedeck29
- Tutorial24
- Slides19
- Lecture16
- hands-on tutorial16
- course materials14
- Webinar11
- Documentation7
- video7
- Course materials5
- E-learning5
- Bioinformatics4
- Exercise4
- Online material4
- PDF4
- Scripts4
- tutorial4
- Series of videos3
- Coding3
- FREE online course3
- Handout3
- youtube video3
- Computational Biology2
- Computer Software2
- E-Learning2
- Installation instructions2
- Jupyter notebook2
- Learning pathway2
- Manual2
- Vignette2
- online course2
- online tutorial2
- scripts2
- slideck/ presentation2
- API reference1
- Book1
- Carpentries style curriculum1
- Computer Science1
- Data Science1
- Education1
- Jupyter notebooks1
- Life Science Literature Database1
- Life Sciences Literature Database1
- Metadata Registry1
- Mock data1
- Open educational resource1
- Poster1
- Programming1
- Quiz1
- Recorded webinar1
- Recording1
- Slideshow1
- Toolkit1
- Training materials with mock data1
- ViralZone1
- educational materials1
- examples1
- hackathon1
- online modules1
- slides / presentation1
- tutorials1
- workflow1
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- Related resource
- Associated Training Datasets253
- Associated Workflows233
- Jupyter Notebook (with Solutions)29
- Jupyter Notebook (without Solutions)29
- The Carpentries7
- Quarto/RMarkdown Notebook3
- Slides3
- DMPonline2
- Workshop recording2
- CanCOGeN1
- Chipster1
- Data Stewardship Wizard1
- Data Visualisation (theory) 1
- DisProt1
- FAIR for busy biologists1
- FAIR in (biological) practice1
- FAIRplus FAIRification wizard1
- GEEM1
- Galaxy project guided tours1
- GitHub1
- MobiDB1
- Next generation biobanking ontology (NGBO)1
- OpenCloning1
- OpenRefine1
- Public Health Alliance for Genomic Epidemiology1
- R basics1
- RDMkit1
- REPET image Docker1
- Ready For BioData Management?1
- Recoding1
- Slides for Introduction to statistics with R 1
- Video Walkthrough of the Poster1
- Workshop FAIR & Data stewardship for the 2020 ITN ProEVLifeCycle1
- Workshop FAIR & Data stewardship for the 2021 ITN ProEVLifeCycle1
- compareMS21
- pydna1
- recorded guidance on how to install a SciNote account1
- recorded intro to hackathon1
- recorded presentation on integration of ELNs in nanosciences1
- seq-seq-pan1
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- Node
- Switzerland87
- Netherlands58
- United Kingdom53
- Belgium26
- Estonia20
- EMBL-EBI18
- Cyprus16
- France15
- Spain12
- Sweden12
- Finland11
- Portugal9
- Slovenia9
- Norway7
- Luxembourg6
- Czech Republic5
- Germany5
- Denmark3
- Greece3
- Italy3
- Israel1
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- Collection
- HemaFAIR Training: Applying FAIR Principles in Hematology Research16
- PINK project10
- ELIXIR Biodiversity Community5
- Elements of Data Management5
- RDMbites: Data management essentials5
- SARS-CoV-2 : Studying a new virus5
- ELIXIR SIS-Containers - collection of training materials4
- ELIXIR Toxicology Community3
- ELIXIR Federated Human Data Community2
- ELIXIR Systems Biology Community: training events and materials2
- 523BET - Nhà Cái 523BET Casino Uy Tín Nhất Việt Nam1
- ELIXIR hCNV community - collection of courses and materials.1
- Impact of research infrastructures1
- PHENotyping and EnviroTyping (PHENET training collection)1
- Single-cell Omics Community - collection of courses and materials1
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- Active135
- Under development1
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