quanrd/tribes

Finding cryptic relationships to boost disease gene detection

TRIBES

This is documentation to TRIBES version 0.2+. For the the documentation for older version 0.1 please check https://github.com/aehrc/TRIBES/tree/branch-0.1 .

TRIBES is a user-friendly platform for relatedness detection in genomic data. TRIBES is the first tool which is both accurate (up to 7th degree) and combines essential data processing steps in a single platform.

We demonstrate the accuracy of TRIBES in our publications here and here

Briefly, input data to TRIBES is quality control filtered, joint sample VCF. TRIBES then follows these steps:

1. The VCF is filtered using quality metrics contained within the VCF file.
2. The resultant VCF is then phased using BEAGLE.
3. IBD Segments are then estimated using GERMLINE.
4. Artefactual IBD is masked using a reference file by adjusting segment endpoints.
5. Adjusted IBD Segments are then summed to estimate relationships.
6. TRIBES returns result files, including .csv of estimated relationships.

To facilitate ease-of-use we employ ‘Snakemake’, a workflow tool which enables flexibility and reproducibility.

The full TRIBES pipeline is described in detail in Supplementary Material.

Learn more

Watch a short video introducing TRIBES and its applications

See documentation for more information on installing and using TRIBES