Training materials
Difficulty level: Intermediate
and Contributors: Anup Kumar or Dr. Jim Procter or Dr. Nils Gehlenborg or Helena Rasche or Rob Finn or Wolfgang Maier
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hands-on tutorial
Pathway analysis with the MINERVA Platform
•• intermediateTranscriptomics bulk cyoa rna-seq viz -
hands-on tutorial
FAIR data management solutions
•• intermediateFAIR Data management -
hands-on tutorial
Mass spectrometry: GC-MS data processing (with XCMS, RAMClustR, RIAssigner, and matchms)
•• intermediateMetabolomics -
hands-on tutorial
Avian influenza viral strain analysis from gene segment sequencing data
•• intermediateGenetic variation Variant Analysis one-health virology -
hands-on tutorial
Python - Coding Style
•• intermediateSoftware engineering Foundations of Data Science jupyter-notebook -
hands-on tutorial
Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data
•• intermediateGenetic variation Variant Analysis covid19 one-health virology -
hands-on tutorial
Refining Genome Annotations with Apollo (prokaryotes)
•• intermediateGenomics Microbiology Gene and protein families Sequence analysis Genome Annotation apollo2 gmod jbrowse1 microgalaxy prokaryote -
hands-on tutorial
Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads
•• intermediateSequence assembly Assembly covid19 -
hands-on tutorial
Identifying tuberculosis transmission links: from SNPs to transmission clusters
•• intermediateEvolutionary biology Genomics Microbiology Infectious disease DNA polymorphism Evolution microgalaxy one-health prokaryote -
hands-on tutorial
Python - Subprocess
•• intermediateSoftware engineering Foundations of Data Science jupyter-notebook