Journal article icon

Journal article

ClonalFrameML: efficient inference of recombination in whole bacterial genomes

Abstract:

Recombination is an important evolutionary force in bacteria, but it remains challenging to reconstruct the imports that occurred in the ancestry of a genomic sample. Here we present ClonalFrameML, which uses maximum likelihood inference to simultaneously detect recombination in bacterial genomes and account for it in phylogenetic reconstruction. ClonalFrameML can analyse hundreds of genomes in a matter of hours, and we demonstrate its usefulness on simulated and real datasets. We find eviden...

Expand abstract
Publication status:
Published
Peer review status:
Peer reviewed

Actions


Access Document


Files:
Publisher copy:
10.1371/journal.pcbi.1004041

Authors


More by this author
Institution:
University of Oxford
Division:
MSD
Department:
NDM
Sub department:
Human Genetics Wt Centre
Role:
Author
More from this funder
Funding agency for:
Wilson, D
Grant:
101237/Z/13/Z
More from this funder
Funding agency for:
Wilson, D
Grant:
101237/Z/13/Z
United Kingdom Clinical Research Collaboration More from this funder
Publisher:
Public Library of Science Publisher's website
Journal:
PLoS Computational Biology Journal website
Volume:
11
Issue:
2
Article number:
e1004041
Publication date:
2015-02-01
DOI:
EISSN:
1553-7358
ISSN:
1553-734X
Source identifiers:
508043
Language:
English
Keywords:
Pubs id:
pubs:508043
UUID:
uuid:4b49222c-2ee8-41f3-a0e6-31607023250d
Local pid:
pubs:508043
Deposit date:
2015-03-24

Terms of use


Views and Downloads






If you are the owner of this record, you can report an update to it here: Report update to this record

TO TOP