bioinformatics

Amazon IGV backend setup

Setting up a secure Amazon Cognito and S3 backend for IGV desktop

Oncoviral integration in cervical never-responder

We are detecting sites of HPV18 oncovirus integration into the human genome, and investigating the mechanism it facilitated cervical cancer progression

Panel of normals

Building a panel of unrelated normals to filter somatic variant calls from artefacts and germline leakage.

Amazon for the Integrative Genomics Viewer (IGV)

On expanding the Broad's Integrative Genomics Viewer (IGV) to read input directly from AWS S3.

BWA-MEM vs Minimap2: WGS somatic variant calling

We evaluate differences between bwa-mem and minimap2-aligned reads for somatic variant calling.