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slides
Introduction to SRA Aligned Read Format and Cloud Metadata for SARS-CoV-2
• beginnerUsing Galaxy and Managing your Data covid19 ncbi -
e-learning
SRA Aligned Read Format to Speed Up SARS-CoV-2 data Analysis
• beginnerUsing Galaxy and Managing your Data covid19 ncbi -
e-learning
From NCBI's Sequence Read Archive (SRA) to Galaxy: SARS-CoV-2 variant analysis
• beginnerGenetic variation Variant Analysis covid19 one-health virology -
video
RDMbites | High-throughput sequencing data repositories
data management RDM
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e-learning
Calling very rare variants
• beginnerGenetic variation Variant Analysis -
Computer Software, workflow
How to use V-pipe (SARS-CoV-2 data)
• beginnerVirology Genetic variation Workflows Variant calling Alignment Read pre-processing coronavirus NGS bioinformatics Variant-calling -
course materials, online course, Training materials
Cloud-SPAN Prenomics
• beginnerBioinformatics Software engineering Genomics Query and retrieval Data handling Cloud computing Shell Command line Amazon Web Services genomics … -
Quality Control of Illumina Sequencing data in the cloud
Bioinformatics Cloud Next generation sequencing Next generation sequencing data analysis Ngs bioinformatics Qc ngs data
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WORKSHOP: Retrieving nucleotide sequencing data from the European Nucleotide Archive
Bioinformatics Data retrieval Genomics FAIR
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e-learning
Galaxy usage on SURF Research Cloud
• beginnerInformatics Data management Galaxy Server administration deploying -
e-learning
Deciphering Virus Populations - Single Nucleotide Variants (SNVs) and Specificities in Baculovirus Isolates
•• intermediateGenetic variation Variant Analysis -
WORKSHOP SERIES: Submitting sequencing data and genome assemblies to the European Nucleotide Archive
Bioinformatics Data submission FAIR Genomics eDNA metagenomics Genome assembly and annotation
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Submitting, Finding and Downloading Raw Sequencing Data with ENA
• beginnerFAIR data Metadata Data submission -
e-learning
NGS data logistics
• beginnerIntroduction to Galaxy Analyses -
e-learning
Pathway analysis with the MINERVA Platform
•• intermediateTranscriptomics bulk cyoa rna-seq viz -
GTN Smörgåsbord 2: Tapas - A Very Short Introduction to Galaxy
Automation, Galaxy workflows, command line Galaxy Galaxy 101 Galaxy, Accelerating Research, data sharing Galaxy, Case Studies, SARS-COV-2 data Galaxy, Customising, customise, ObservableHQ Galaxy, Mutation calling, viral genome reconstruction, lineage assignment, clade assignment, SARS-CoV-2 sequencing data Galaxy, NGS Galaxy, Pandemics Research, Mass Spectrometry, MS Galaxy, Quality control, QC …
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GTN Smörgåsbord 3: OneHealth - Building a pathogen surveillance system with Galaxy - An automated SARS-CoV-2 genome surveillance system built around Galaxy
Galaxy, Build, pathogen surveillance system, automated, automation, SARS-CoV-2, genome surveillance, system Galaxy, Building, pathogen surveillance system, Automating, automation, workflows, command line Galaxy, Building, pathogen surveillance system, Removal,human reads, SARS-CoV-2, sequencing data Galaxy, Building, pathogen surveillance system, Upload data, ENA Galaxy, Building, pathogen surveillance system, usegalaxy, SARS-CoV-2, Bot Galaxy, Sequencing data analysis, spectrum, viral genomes Galaxy, Tuberculosis Sequence Analysis, Concepts, drug-resistance, prediction, mutation-based, clustering Galaxy, Tuberculosis Sequence Analysis, Identifying, tuberculosis transmission, links, SNPs, transmission clusters Galaxy, Tuberculosis Sequence Analysis, Implementation, NGS, TB- WHO, documents, considerations Galaxy, Tuberculosis Sequence Analysis, Tuberculosis, Variant Analysis …