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Hunter, P.R. 
ORCID: https://orcid.org/0000-0002-5608-6144
(1993)
A numerical method for allocating microbial isolates to strain types when characterized by typing methods that are not 100% reproducible.
Bioinformatics, 9 (4).
pp. 403-405.
ISSN 1367-4803
Abstract
Many methods for typing microbial strains are not 100% reproducible. This can create problems when deciding whether different groups of isolates are really distinct or represent typing errors or variation of a single strain. Neither hierarchical clustering nor iterative partitioning methods are suited for analysing such data. A novel iterative partitioning method is described which allows for the uncertainty of the typing method in use. Before grouping strains, the maximum dimension of the groups is set based on a previous knowledge of the typing method's reproducibility. Isolates are only allocated to a group if they differ from that group's typical strain type by less than the number of reaction differences required to distinguish between two strains. In a series of Monte Carlo studies the accuracy of strain allocation was found to be very good, even when the two groups were situated close to each other.
| Item Type: | Article |
|---|---|
| Faculty \ School: | Faculty of Medicine and Health Sciences > Norwich Medical School |
| UEA Research Groups: | Faculty of Social Sciences > Research Centres > Water Security Research Centre Faculty of Medicine and Health Sciences > Research Groups > Epidemiology and Public Health Faculty of Medicine and Health Sciences > Research Groups > Public Health and Health Services Research (former - to 2023) Faculty of Medicine and Health Sciences > Research Centres > Population Health |
| Related URLs: | |
| Depositing User: | LivePure Connector |
| Date Deposited: | 28 Feb 2022 14:30 |
| Last Modified: | 19 Oct 2023 03:16 |
| URI: | https://ueaeprints.uea.ac.uk/id/eprint/83770 |
| DOI: | 10.1093/bioinformatics/9.4.403 |
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