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- Publisher Website: 10.1093/gigascience/gix045
- Scopus: eid_2-s2.0-85028370314
- PMID: 28637275
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Article: 16GT: a fast and sensitive variant caller using a 16-genotype probabilistic model
| Title | 16GT: a fast and sensitive variant caller using a 16-genotype probabilistic model |
|---|---|
| Authors | |
| Keywords | Bayesian model Indel calling SNP calling Variant calling |
| Issue Date | 2017 |
| Publisher | Oxford University Press. The Journal's web site is located at https://academic.oup.com/gigascience |
| Citation | GigaScience, 2017, v. 6 n. 7, p. article no. gix045 How to Cite? |
| Abstract | 16GT is a variant caller for Illumina whole-genome and whole-exome sequencing data. It uses a new 16-genotype probabilistic model to unify single nucleotide polymorphism and insertion and deletion calling in a single variant calling algorithm. In benchmark comparisons with 5 other widely used variant callers on a modern 36-core server, 16GT demonstrated improved sensitivity in calling single nucleotide polymorphisms, and it provided comparable sensitivity and accuracy for calling insertions and deletions as compared to the GATK HaplotypeCaller. 16GT is available at https://github.com/aquaskyline/16GT. |
| Persistent Identifier | http://hdl.handle.net/10722/284230 |
| ISSN | 2023 Impact Factor: 11.8 2023 SCImago Journal Rankings: 4.621 |
| PubMed Central ID | |
| ISI Accession Number ID |
| DC Field | Value | Language |
|---|---|---|
| dc.contributor.author | Luo, R | - |
| dc.contributor.author | Schatz, MC | - |
| dc.contributor.author | Salzberg, SL | - |
| dc.date.accessioned | 2020-07-20T05:57:05Z | - |
| dc.date.available | 2020-07-20T05:57:05Z | - |
| dc.date.issued | 2017 | - |
| dc.identifier.citation | GigaScience, 2017, v. 6 n. 7, p. article no. gix045 | - |
| dc.identifier.issn | 2047-217X | - |
| dc.identifier.uri | http://hdl.handle.net/10722/284230 | - |
| dc.description.abstract | 16GT is a variant caller for Illumina whole-genome and whole-exome sequencing data. It uses a new 16-genotype probabilistic model to unify single nucleotide polymorphism and insertion and deletion calling in a single variant calling algorithm. In benchmark comparisons with 5 other widely used variant callers on a modern 36-core server, 16GT demonstrated improved sensitivity in calling single nucleotide polymorphisms, and it provided comparable sensitivity and accuracy for calling insertions and deletions as compared to the GATK HaplotypeCaller. 16GT is available at https://github.com/aquaskyline/16GT. | - |
| dc.language | eng | - |
| dc.publisher | Oxford University Press. The Journal's web site is located at https://academic.oup.com/gigascience | - |
| dc.relation.ispartof | GigaScience | - |
| dc.rights | Pre-print: Journal Title] ©: [year] [owner as specified on the article] Published by Oxford University Press [on behalf of xxxxxx]. All rights reserved. Pre-print (Once an article is published, preprint notice should be amended to): This is an electronic version of an article published in [include the complete citation information for the final version of the Article as published in the print edition of the Journal.] Post-print: This is a pre-copy-editing, author-produced PDF of an article accepted for publication in [insert journal title] following peer review. The definitive publisher-authenticated version [insert complete citation information here] is available online at: xxxxxxx [insert URL that the author will receive upon publication here]. | - |
| dc.rights | This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License. | - |
| dc.subject | Bayesian model | - |
| dc.subject | Indel calling | - |
| dc.subject | SNP calling | - |
| dc.subject | Variant calling | - |
| dc.title | 16GT: a fast and sensitive variant caller using a 16-genotype probabilistic model | - |
| dc.type | Article | - |
| dc.identifier.email | Luo, R: rbluo@cs.hku.hk | - |
| dc.identifier.authority | Luo, R=rp02360 | - |
| dc.description.nature | published_or_final_version | - |
| dc.identifier.doi | 10.1093/gigascience/gix045 | - |
| dc.identifier.pmid | 28637275 | - |
| dc.identifier.pmcid | PMC5570013 | - |
| dc.identifier.scopus | eid_2-s2.0-85028370314 | - |
| dc.identifier.hkuros | 310904 | - |
| dc.identifier.volume | 6 | - |
| dc.identifier.issue | 7 | - |
| dc.identifier.spage | article no. gix045 | - |
| dc.identifier.epage | article no. gix045 | - |
| dc.identifier.isi | WOS:000405827800001 | - |
| dc.publisher.place | United Kingdom | - |
| dc.identifier.issnl | 2047-217X | - |