duncanMR
DPhil student in the Genomic Medicine and Statistics programme at the University of Oxford, working on tskit.
Big Date Institute, University of OxfordOxford, United Kingdom
Pinned Repositories
.doom.d
dotfiles
Bare repository of my dotfiles
GeneticInheritanceGraph
pedigrees_project
Developing methods to identify pedigree structure in tree sequence data created from Whole Genome Sequencing samples. Part of my rotation project with Dr Jerome Kelleher's lab at the Big Data Insitute, University of Oxford.
snakemake_tutorial
Solution to a Snakemake NGS pipeline tutorial
tda-for-cxr
Functions for producing topological features from lung x-ray images.
tsinfer
Infer a tree sequence from genetic variation data.
tsinfer-qc
Utilities for evaluating tsinfer inferences
tskit
Population-scale genomics
vcf-prioritise
Nextflow pipeline for annotating and prioritising variants from Whole Genome Sequencing data
duncanMR's Repositories
duncanMR/.doom.d
duncanMR/vcf-prioritise
Nextflow pipeline for annotating and prioritising variants from Whole Genome Sequencing data
duncanMR/dotfiles
Bare repository of my dotfiles
duncanMR/GeneticInheritanceGraph
duncanMR/pedigrees_project
Developing methods to identify pedigree structure in tree sequence data created from Whole Genome Sequencing samples. Part of my rotation project with Dr Jerome Kelleher's lab at the Big Data Insitute, University of Oxford.
duncanMR/snakemake_tutorial
Solution to a Snakemake NGS pipeline tutorial
duncanMR/tda-for-cxr
Functions for producing topological features from lung x-ray images.
duncanMR/tsinfer
Infer a tree sequence from genetic variation data.
duncanMR/tsinfer-qc
Utilities for evaluating tsinfer inferences
duncanMR/tskit
Population-scale genomics
duncanMR/VPOT-nf
VPOT - Variant Prioritisation Ordering Tool. VPOT is a Python tool written to allow prioritisation of variants in ANNOVAR annotated VCF files. Modified with an additional function to divide variants with multiple gene panels.
duncanMR/wgs-variant-analysis
This repository includes all the code and shell commands I used to analyse six Whole Genoming Sequencing (WGS) samples as part of Bioinformatics Master's project at Stellenbosch University, South Africa. The goal of my project is to find medically relevant variants and compile them in a report for the patient's clinician.Ethics approval was obtained for the study, however the patient data can obviously not be shared publically.