Training materials
Authors: Bazante Sanders or Egon Willighagen or Gary Van Domselaar or Laura Cooper or Malachi Griffith or The Carpentries or Wendi Bacon or pajanne
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hands-on tutorial
Filter, plot and explore single-cell RNA-seq data with Scanpy (Python)
• beginner10x Python Single Cell jupyter-notebook paper-replication -
hands-on tutorial
Generating a single cell matrix using Alevin and combining datasets (bash + R)
• beginner10x Single Cell jupyter-notebook paper-replication -
hands-on tutorial
Inferring single cell trajectories with Scanpy
• beginner10x Single Cell paper-replication -
hands-on tutorial
Data visualisation Olympics - Visualization in R
• beginnerSoftware engineering Foundations of Data Science R cyoa jupyter-notebook rmarkdown-notebook -
hands-on tutorial
Identification of AMR genes in an assembled bacterial genome
• beginnerWhole genome sequencing Public health and epidemiology Genomics Microbiology Sequence analysis Infectious disease Antimicrobial Resistance Genome Annotation amr gmod illumina jbrowse1 microgalaxy one-health -
hands-on tutorial
REMBI - Recommended Metadata for Biological Images – metadata guidelines for bioimaging data
• beginnerBioimaging FAIR REMBI -
Blog post
Making BridgeDb Derby files with Groovy
•• intermediateBridgeDb Groovy -
hands-on tutorial
FAIR Bioimage Metadata
• beginnerFAIR bioimage Bioimage Metadata -
Creating InChIKeys for IUPAC names
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hands-on tutorial
Comparing inferred cell compositions using MuSiC deconvolution
• beginnerSingle Cell transcriptomics