Explore projects

Plot heterozygosity from WGS VCFs

mtDNA variant calling using the Remove the NUMTs algorithm

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

Richardson Lab website

Simulation and analysis for a model coupling 3D chromatin structure and transcriptional dynamics

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

Genome wide analysis of emRiboSeq embedded ribonucleotide context preferences.

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

Configurable template for read alignment, processing and somatic variant calling using SGE cluster

Normalization and intersection of somatic variant calls from multiple callers