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1. Rare_CTC_RNA_DGE_Pipeline Rare_CTC_RNA_DGE_Pipeline Public

   End-to-end Nextflow DSL2 RNA-seq DGE pipeline optimised for rare-cell CTC transcriptomics. fastp → Salmon → edgeR with low-input aware filtering, TMMwsp normalisation, and full audit trail.

   R

2. Mouse_Neoantigen_Candidates Mouse_Neoantigen_Candidates Public

   End-to-end Nextflow DSL2 pipeline for somatic variant calling and MHC-I neoantigen prediction from murine RNA-Seq data (GRCm39 / *Mus musculus*). Designed for personalised cancer immunotherapy rese…

   Python

3. TCGA_Survival_Biomarker TCGA_Survival_Biomarker Public

   Survival and biomarker analysis linking tumour gene expression to patient outcome, using Kaplan-Meier estimation, the log-rank test and Cox proportional hazards regression (lifelines). Designed to …

   Python

4. Single_Cell_PBMC Single_Cell_PBMC Public

   An end-to-end single-cell RNA-seq workflow in scanpy, taking raw 10x UMI counts through quality control, normalisation, dimensionality reduction, Leiden clustering, marker-gene detection and cell-t…

   Python

5. MSc-Project MSc-Project Public

   R–Net is a custom-built Convolutional Neural Network (CNN) developed for automated, segmentation-free quantification of cell types in microscopy images. Created as part of an MSc Biomedical Enginee…

6. Third-Year-Project Third-Year-Project Public

   Multi-Class Classification of EEG Signals Using a Fuzzy Based Rule System for Brain Computer Interfaces