Tutorials
We provide here tutorials to help you to get used with THORIN, and infer the parent-of-origin of alleles.
The Toy example tutorial allows you to get use to IBD mapping using our tool THORIN.
In addition, we also provide the Parent-of-origin inference pipeline tutorial, a multi-step tutorials to describe and help applying the entire parent-of-origin inference pipeline. For the scope of this tutorial, we have adapted our scripts to fit the 1000 Genome Project, so that the publicly available genotype data of the 1000 Genome Project will serve as reference and example data. The goal of this it to provide example that and script that are up and running for everyone.
Current stage
This tutorial is now complete and cover all our inference step, from the download of the example data, to IBD mapping, phasing, imputation, and lastly encoding of the two parental haplotypes.
The final files of this pipeline, that is, parental haplotypes, can directly be used in GWAS to identify parent-of-origin effects.
System requirements
We are running all our experiments on Ubuntu 20.04.6 LTS