Journal
BMC BIOINFORMATICS
Volume 22, Issue 1, Pages -Publisher
BMC
DOI: 10.1186/s12859-021-04424-w
Keywords
Comparative genomics; Pan-genome; Genome analysis
Categories
Funding
- US National Science Foundation [IOS-1543963, IIS-1814359]
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PGV is a reference-agnostic representation of a species' pan-genome based on consensus ordering, enabling intuitive, effective, and interactive visualization of complex structural genomic variations. The PGV software can be easily installed via conda or downloaded from the website, with a companion browser available for testing using example bed tracks from the GitHub page.
Background The pan-genome of a species is the union of the genes and non-coding sequences present in all individuals (cultivar, accessions, or strains) within that species. Results Here we introduce PGV, a reference-agnostic representation of the pan-genome of a species based on the notion of consensus ordering. Our experimental results demonstrate that PGV enables an intuitive, effective and interactive visualization of a pan-genome by providing a genome browser that can elucidate complex structural genomic variations. Conclusions The PGV software can be installed via conda or downloaded from . The companion PGV browser at can be tested using example bed tracks available from the GitHub page.
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