- Abstract:
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SUMMARY: We have developed a software package, Cortex, designed for the analysis of genetic variation by de novo assembly of multiple samples. This allows direct comparison of samples without using a reference genome as intermediate and incorporates discovery and genotyping of single-nucleotide polymorphisms, indels and larger events in a single framework. We introduce pipelines which simplify the analysis of microbial samples and increase discovery power; these also enable the construction o...
Expand abstract - Publication status:
- Published
- Peer review status:
- Peer reviewed
- Version:
- Publisher's version
- Files:
-
-
(pdf, 130.8KB)
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- Publisher copy:
- 10.1093/bioinformatics/bts673
-
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- Publisher:
- Oxford University Press Publisher's website
- Journal:
- Bioinformatics (Oxford, England) Journal website
- Volume:
- 29
- Issue:
- 2
- Pages:
- 275-276
- Publication date:
- 2013-01-05
- DOI:
- EISSN:
-
1367-4811
- ISSN:
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1367-4803
- URN:
-
uuid:c7b57beb-3bb3-498b-af45-caca31f1b361
- Source identifiers:
-
363824
- Local pid:
- pubs:363824
- Language:
- English
- Keywords:
- Subjects:
- Copyright holder:
- Zamin Iqbal, Isaac Turner and Gil McVean
- Copyright date:
- 2013
- Notes:
- © The Author(s) 2012. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/3.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
Journal article
High-throughput microbial population genomics using the Cortex variation assembler.
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