Explore projects

NUMT removal and variant caller benchmarking for low mtDNA heteroplasmies.

https://readthedocs.org/ demo

Tezos smart contracts

Repo of material from the 2022 Physics PhD student workshop.

A module that uses Gaussian processes to estimate first and second derivatives.

Mitochondrial variant caller benchmarking for low coverage single-cell RNA-Seq data.

Plot heterozygosity from WGS VCFs

Nextflow pipeline for cell-level variant calling in 10x single-cell RNA-sequencing data.

Comparison of PCAWG "TNT" deletion rates vs housekeeping gene expression.

Analyses relating to mouse tumour, RPE1 bottlenck, pol2-M644G rnh201 KO yeast and de novo indel variants

Repository for launching the baal-nf pipeline on deeply sequenced CLIP-seq samples

Module for assessing short simple repeats in either the context of variants (insertions/deletions) or a genome reference sequence.

Pre-processing scripts for DNMs from http://www.genemed.tech/gene4denovo/download - convert DNMs to BCF/VCF format for further analysis

Gauri's python scripts for mapping missense variants

Analysis of deletions in PCAWG ID4-positive tumours relative to TOP1-seq signal from Baranello et al. (2016): doi:10.1016/j.cell.2016.02.036

Pan-cancer analysis of deletion mutation patterns relative to genic transcription.