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It icomprises glycan chains and peptide stems, both containing unusual amino acids and sugars. This has forced the field to rely on manual analysis approaches, which are time-consuming, labour-intensive, and prone to error. The lack of automated tools has hampered the ability to perform high-throughput analyses and prevented the adoption of a standard methodology. Here, we describe a novel tool called PGFinder for the analysis of PG structure and demonstrate that it represents a powerful tool to quantify PG fragments and discover novel structural features. Our analysis workflow, which relies on open-access tools, is a breakthrough towards a consistent and reproducible analysis of bacterial PGs. It represents a significant advance towards peptidoglycomics as a full-fledged discipline.<\/jats:p>","DOI":"10.7554\/elife.70597","type":"journal-article","created":{"date-parts":[[2021,9,27]],"date-time":"2021-09-27T20:01:17Z","timestamp":1632772877000},"update-policy":"https:\/\/doi.org\/10.7554\/elife.70597","source":"Crossref","is-referenced-by-count":26,"title":["PGFinder, a novel analysis pipeline for the consistent, reproducible, and high-resolution structural analysis of bacterial peptidoglycans"],"prefix":"10.7554","volume":"10","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-8161-3455","authenticated-orcid":true,"given":"Ankur V","family":"Patel","sequence":"first","affiliation":[{"name":"School of Biosciences, University of Sheffield","place":["Sheffield, United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Robert D","family":"Turner","sequence":"additional","affiliation":[{"name":"Department of Computer Science, University of 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