186 related articles for article (PubMed ID: 33782612)
1. A unified haplotype-based method for accurate and comprehensive variant calling.
Cooke DP; Wedge DC; Lunter G
Nat Biotechnol; 2021 Jul; 39(7):885-892. PubMed ID: 33782612
[TBL] [Abstract][Full Text] [Related]
2. SNVSniffer: an integrated caller for germline and somatic single-nucleotide and indel mutations.
Liu Y; Loewer M; Aluru S; Schmidt B
BMC Syst Biol; 2016 Aug; 10 Suppl 2(Suppl 2):47. PubMed ID: 27489955
[TBL] [Abstract][Full Text] [Related]
3. Comparing variant calling algorithms for target-exon sequencing in a large sample.
Lo Y; Kang HM; Nelson MR; Othman MI; Chissoe SL; Ehm MG; Abecasis GR; Zöllner S
BMC Bioinformatics; 2015 Mar; 16():75. PubMed ID: 25884587
[TBL] [Abstract][Full Text] [Related]
4. A method to reduce ancestry related germline false positives in tumor only somatic variant calling.
Halperin RF; Carpten JD; Manojlovic Z; Aldrich J; Keats J; Byron S; Liang WS; Russell M; Enriquez D; Claasen A; Cherni I; Awuah B; Oppong J; Wicha MS; Newman LA; Jaigge E; Kim S; Craig DW
BMC Med Genomics; 2017 Oct; 10(1):61. PubMed ID: 29052513
[TBL] [Abstract][Full Text] [Related]
5. Octopus: Genotyping and Haplotyping in Diverse Experimental Designs.
Cooke DP
Methods Mol Biol; 2022; 2493():29-51. PubMed ID: 35751807
[TBL] [Abstract][Full Text] [Related]
6. A dynamic Bayesian Markov model for phasing and characterizing haplotypes in next-generation sequencing.
Zhang Y
Bioinformatics; 2013 Apr; 29(7):878-85. PubMed ID: 23407359
[TBL] [Abstract][Full Text] [Related]
7. SNooPer: a machine learning-based method for somatic variant identification from low-pass next-generation sequencing.
Spinella JF; Mehanna P; Vidal R; Saillour V; Cassart P; Richer C; Ouimet M; Healy J; Sinnett D
BMC Genomics; 2016 Nov; 17(1):912. PubMed ID: 27842494
[TBL] [Abstract][Full Text] [Related]
8. Generation of SNP datasets for orangutan population genomics using improved reduced-representation sequencing and direct comparisons of SNP calling algorithms.
Greminger MP; Stölting KN; Nater A; Goossens B; Arora N; Bruggmann R; Patrignani A; Nussberger B; Sharma R; Kraus RH; Ambu LN; Singleton I; Chikhi L; van Schaik CP; Krützen M
BMC Genomics; 2014 Jan; 15():16. PubMed ID: 24405840
[TBL] [Abstract][Full Text] [Related]
9. A kinetic model-based algorithm to classify NGS short reads by their allele origin.
Marinoni A; Rizzo E; Limongelli I; Gamba P; Bellazzi R
J Biomed Inform; 2015 Feb; 53():121-7. PubMed ID: 25311269
[TBL] [Abstract][Full Text] [Related]
10. BAYSIC: a Bayesian method for combining sets of genome variants with improved specificity and sensitivity.
Cantarel BL; Weaver D; McNeill N; Zhang J; Mackey AJ; Reese J
BMC Bioinformatics; 2014 Apr; 15():104. PubMed ID: 24725768
[TBL] [Abstract][Full Text] [Related]
11. An integrative variant analysis pipeline for accurate genotype/haplotype inference in population NGS data.
Wang Y; Lu J; Yu J; Gibbs RA; Yu F
Genome Res; 2013 May; 23(5):833-42. PubMed ID: 23296920
[TBL] [Abstract][Full Text] [Related]
12. Using genotype array data to compare multi- and single-sample variant calls and improve variant call sets from deep coverage whole-genome sequencing data.
Shringarpure SS; Mathias RA; Hernandez RD; O'Connor TD; Szpiech ZA; Torres R; De La Vega FM; Bustamante CD; Barnes KC; Taub MA;
Bioinformatics; 2017 Apr; 33(8):1147-1153. PubMed ID: 28035032
[TBL] [Abstract][Full Text] [Related]
13. UNDR ROVER - a fast and accurate variant caller for targeted DNA sequencing.
Park DJ; Li R; Lau E; Georgeson P; Nguyen-Dumont T; Pope BJ
BMC Bioinformatics; 2016 Apr; 17():165. PubMed ID: 27083325
[TBL] [Abstract][Full Text] [Related]
14. Joint haplotype assembly and genotype calling via sequential Monte Carlo algorithm.
Ahn S; Vikalo H
BMC Bioinformatics; 2015 Jul; 16():223. PubMed ID: 26178880
[TBL] [Abstract][Full Text] [Related]
15. NanoSNP: a progressive and haplotype-aware SNP caller on low-coverage nanopore sequencing data.
Huang N; Xu M; Nie F; Ni P; Xiao CL; Luo F; Wang J
Bioinformatics; 2023 Jan; 39(1):. PubMed ID: 36548365
[TBL] [Abstract][Full Text] [Related]
16. Strelka2: fast and accurate calling of germline and somatic variants.
Kim S; Scheffler K; Halpern AL; Bekritsky MA; Noh E; Källberg M; Chen X; Kim Y; Beyter D; Krusche P; Saunders CT
Nat Methods; 2018 Aug; 15(8):591-594. PubMed ID: 30013048
[TBL] [Abstract][Full Text] [Related]
17. Benchmarking small-variant genotyping in polyploids.
Cooke DP; Wedge DC; Lunter G
Genome Res; 2022 Feb; 32(2):403-408. PubMed ID: 34965940
[TBL] [Abstract][Full Text] [Related]
18. Longshot enables accurate variant calling in diploid genomes from single-molecule long read sequencing.
Edge P; Bansal V
Nat Commun; 2019 Oct; 10(1):4660. PubMed ID: 31604920
[TBL] [Abstract][Full Text] [Related]
19. HAPDeNovo: a haplotype-based approach for filtering and phasing de novo mutations in linked read sequencing data.
Zhou X; Batzoglou S; Sidow A; Zhang L
BMC Genomics; 2018 Jun; 19(1):467. PubMed ID: 29914369
[TBL] [Abstract][Full Text] [Related]
20. Variant callers for next-generation sequencing data: a comparison study.
Liu X; Han S; Wang Z; Gelernter J; Yang BZ
PLoS One; 2013; 8(9):e75619. PubMed ID: 24086590
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]