Hi there 👋

Welcome to my GitHub profile!

R Packages

• scRUtils: Single-Cell Sequencing Analysis Utilities [Vignette]

NGS Tutorials

• RNA-Seq: RNA-seq Data Analysis
  • Differential gene expression (DGE) analysis
  • Differential transcript expression (DTE) analysis
  • Differential transcript usage (DTU) analysis
• Microbiome: 16S rDNA V3-V4 amplicon sequencing analysis
• Tertiary analysis
  • GO enrichment analysis with topGO, clusterProfiler & Enrichr/enrichR
  • Visualize enrichment of genomic signals on targets or regions using EnrichedHeatmap

Misc.

• Create a GitHub Pages site for your repository
• Create stacked violin plots from Seurat, SingleCellExperiment and data.frame objects
• Gallery showcasing Pandoc syntax highlight styles before and after version 2.11
• Short examples of using R in data analysis and visualisation
  • National survey
    • Deaths registered monthly in England and Wales
    • COVID-19 Vaccination Statistics in England
  • Gene expression
    • Visualise differential expression analysis results with MA plot
    • Normalisation of bulk RNA-seq counts
    • Plot ligand-receptor expression on UMAP and t-SNE projection
  • Others
    • Visualise interaction between 2 variables with parallel sets diagrams
    • Testing of the Spatial Image Analysis of Tissues (SPIAT) R package