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Article

APAV: An advanced pangenome analysis and visualization toolkit.

PLoS computational biology - 1 Jul 2025

Dong Xiaorui, Jiao Du, Xue Hongzhang, Fan Shiyu, Wei Chaochun

Abstract excerpt

Traditional pangenome analysis focuses on gene presence/absence variations (gene PAVs). However, the current methods for gene PAV analysis are insensitive to detect small but valuable mutations within gene regions, and they overlook variations in intergenic regions. Additionally, the visual inspection of PAVs is an important but time-consuming step for pangenome analysis and result interpretation. To address...

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Topics

Software
Humans
Oryza
Computational Biology
Genomics
Genetic Variation
Neoplasms

Methodology Data sources Editorial policy Privacy Delete account & data About Contact Helena Bioinformatics

Genome, Plant

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PMID: 40623120
DOI: 10.1371/journal.pcbi.1013288
PMCID: PMC12251200

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