Construct and Analyze the North American Vitis pangenome
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Updated
Dec 21, 2023 - R
Construct and Analyze the North American Vitis pangenome
Scripts for Hill et al. (in review) 🌾
This repository contains the files from my master thesis project required to conduct a whole-genome analysis of haploblocks in wheat based on pairwise comparisons between assemblies. This is based on a previous method (https://doi.org/10.1038/s42003-020-01413-2), but focuses on the the quality of the pairwise comparisons to call haplotypes.
Pangenomic Statistical analysis in R (pasaR)
Functions for working with NCBI's Pathogen Detection data
Repository dedicated to the experiment section of the paper: Revisiting pangenome openness with k-mers. PCJ Math & Comp Biol. (2024).
PAPi (Pangenome Analysis Pipeline)
The lumpy skin disease virus (LSDV) pangenome variation graph (PVG)
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