Useful Links and Resources

💼 Career & Research Advice

• Strategic career building during your PhD:
  Adrian Liston, Lydia E. Makaroff
  “Strategic career building during your PhD: a timeline for maximizing your opportunities”

• Other papers by Adrian Liston:

  • Starting Your Independent Research Laboratory
  • Nurturing a Positive Research Culture Within Your Laboratory

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🧭 Tools & Visualizations

• Sleepwalk – Interactive embedding exploration

• How GPT-3 works – Visualizations & animations

• Exploratory Data Analysis with LLMs

• The Bullshit Machines – Critical take on AI

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📊 Statistical Concepts

• Anscombe’s Quartet extensions:
  Datasets constructed to highlight statistical illusions

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🧬 Bioinformatics

• RNA velocity (mentioned by Davide):
  “RNA velocity revisited”

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🧪 Annotation Working Group

• CHEUI – m6A and m5C modification identification from nanopore data
  GitHub repo: comprna/CHEUI

• CSAMA Annotation Repository – by Vince Carey
  Mostly single-cell annotation, but more general concerns too

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🔬 Project: Multi-omics (bulk)

• Shared Google Doc with discussion notes
  Multi-omics summary and collaborative document

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📦 R Packaging & Bioconductor

• Bioconductor Package Submission Guidelines
• R Package Development Walkthrough (Sonesson)
• PLOS CompBio summary of Bioconductor contributions
• 📁 bobR.zip – Download file
  Shared by Helena L. Crowell – likely related to R packaging or workshop materials

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📷 Photos

• Google Photos Album Feel free to add your photos!