This is a project which is currently making use of HPC facilities at Newcastle University. It is active.
For further information about this project, please contact:
This project aims to build analysis pipelines to investigate molecular genetics (single nucleotide and copy number variation) of Acute Myeloid Leukaemia and Chronic Lymphoid Leukaemia.
The GWAS workflows are primarily built in R and use R packages such as BiocManager, tidyverse, bigstatsr and bigsnpr etc. We also extensively use genetics tools such as BCFtools, PLINK, QCtool and SNPTEST. Our copy number analysis pipeline is mostly R and Python based, including some tools that use Perl. Majority of the analyses and statistical tests are run as chromosome level jobs through the cluster's scheduling system to increase the efficiency.