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jamesboot/README.md

📣 About me

⏰ TL;DR

  • 🔭 I’m currently working on: implementing ML models in analysis & pipeline automation & spatial transcriptomics neighbourhood analysis (interactVis)!
  • 🌱 I’m currently learning: NextFlow!
  • 💬 Ask me about: Anything! I'll try and help as best as I can!
  • 📫 How to reach me: LinkedIn
  • ⚡ Fun fact: I went to high school in China! And my profile picture is AI generated (surprise!).

📝 Key publications

📄 Extended Intro

I am a Senior Bioinformatician at The Francis Crick Institute in London, I work within the Bioinformatics and Biostatistics science technology platform providing analysis support to research scientists. I learnt to code (R) and the basics of bioinformatics during my PhD, which was focussed on the epigenetic and transcriptomic profiles of Glioblastoma brain tumours. Following my PhD I took up a position as Bioinformatician within the Genome Centre at QMUL for 3 years, before moving to The Crick. Being predominantly self-taught; I love the continual learning process of coding and bioinformatics which makes everyday exciting!

I have experience with many dataset types including:

  • Bulk-RNAseq
  • Single-cell-RNAseq
  • Spatial transcriptomics
  • ChIPseq
  • RRBS
  • Methylation arrays
  • WGS
  • Flow cytometry

My services range from support to full analysis pipelines for clients, which may include where appropriate:

  • Quality control
  • Filtering
  • Normalisation
  • Dimensionality reduction
  • Clustering
  • Exploratory analysis
  • Batch correction
  • Differential analysis
  • Pathway analysis and more.

Popular repositories Loading

  1. RNAseq RNAseq Public

    Scripts for bulk RNAseq analysis

    R 1

  2. Miscellaneous_Coding_Tasks Miscellaneous_Coding_Tasks Public

    Hobby coding tasks in order to improve coding skills

    Jupyter Notebook

  3. fastqc_homebrew fastqc_homebrew Public

    Hobby project to improve python coding by recreating some fastqc functions

    Python

  4. interactVis interactVis Public

    Spatially resolved neighbourhood analysis

    R

  5. jamesboot jamesboot Public

  6. rnaseq_nextflow rnaseq_nextflow Public

    NextFlow learning and development repo

    Nextflow