Yi-Ting's Projects
Simulates the behaviour of systems written in the Beacon Calculus.
From an Mtb genome's SRA accession number, fetch and process paired-read sequencing data for lineage profiling (TB-Profiler)
Part III project
Bash script for running job array on CSD3 for multiple BEAST2 runs
VS Code plugin for F# development
Phylodynamic simulations and inference of inter-species Mycobacterium spp transmission
Useful bash one-liners for bioinformatics.
SIR model for Hendra virus circulation in eastern Australian flying-fox species (P. alecto, P. poliocephalus). Incorporates an annual seasonal birth pulse function as described by Peel et al., 2014. Data visualisation functions included.
A series of scripts that were used to simulate outbreaks and compare models' estimates for these outbreaks