This package contains two perl scripts and corresponding distance matrixes to calculate amino acid sequence divergence among alleles in a pairwise manner or among all alleles of an individual. The scripts were specifically written to calculate divergence between alleles of MHC/HLA immune genes.
Written by Tobias Lenz, last updated May 2020.
Please cite the following reference when using this script in your research:
Pierini & Lenz (2018) Divergent allele advantage at human MHC genes: signatures of past and ongoing selection. Molecular Biology and Evolution 35: 2145-2158. https://doi.org/10.1093/molbev/msy116
Features
- Simple calculation of individual allele divergence at MHC/HLA genes
- Different distance parameters available, including Grantham and pdistance
- Works for any species when sequence data is available
- Sequence alignments for human HLA class I and class II alleles included
Project Samples
Other Useful Business Software
AI-generated apps that pass security review
Retool lets you generate dashboards, admin panels, and workflows directly on your data. Type something like “Build me a revenue dashboard on my Stripe data” and get a working app with security, permissions, and compliance built in from day one. Whether on our cloud or self-hosted, create the internal software your team needs without compromising enterprise standards or control.
Rate This Project
Login To Rate This Project
User Reviews
Be the first to post a review of GranthamDist!
