Wences, A. H., Schatz, M. C. (September 2015) Metassembler: merging and optimizing de novo genome assemblies. Genome Biol, 16 (1). p. 207. ISSN 1474-760X (Electronic)1474-7596 (Linking)
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Abstract
Genome assembly projects typically run multiple algorithms in an attempt to find the single best assembly, although those assemblies often have complementary, if untapped, strengths and weaknesses. We present our metassembler algorithm that merges multiple assemblies of a genome into a single superior sequence. We apply it to the four genomes from the Assemblathon competitions and show it consistently and substantially improves the contiguity and quality of each assembly. We also develop guidelines for meta-assembly by systematically evaluating 120 permutations of merging the top 5 assemblies of the first Assemblathon competition. The software is open-source at http://metassembler.sourceforge.net .
| Item Type: | Paper |
|---|---|
| Subjects: | bioinformatics > genomics and proteomics bioinformatics > computational biology bioinformatics > genomics and proteomics > computers > computer software bioinformatics > genomics and proteomics > genetics & nucleic acid processing > genomes > de novo assembly bioinformatics > genomics and proteomics > analysis and processing > reference assembly |
| CSHL Authors: | |
| Communities: | CSHL labs > Schatz lab |
| Depositing User: | Matt Covey |
| Date: | 24 September 2015 |
| Date Deposited: | 02 Oct 2015 15:19 |
| Last Modified: | 20 Oct 2015 20:08 |
| PMCID: | PMC4581417 |
| Related URLs: | |
| URI: | https://repository.cshl.edu/id/eprint/31893 |
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