GHap: An R package for genome-wide haplotyping

Bibliographic Details
Main Author: Utsunomiya, Yuri T. [UNESP]
Publication Date: 2016
Other Authors: Milanesi, Marco [UNESP], Utsunomiya, Adam T. H. [UNESP], Ajmone-Marsan, Paolo, Garcia, José F. [UNESP]
Format: Article
Language: eng
Source: Repositório Institucional da UNESP
Download full: http://dx.doi.org/10.1093/bioinformatics/btw356
http://hdl.handle.net/11449/173672
Summary: The GHap R package was designed to call haplotypes from phased marker data. Given user-defined haplotype blocks (HapBlock), the package identifies the different haplotype alleles (HapAllele) present in the data and scores sample haplotype allele genotypes (HapGenotype) based on HapAllele dose (i.e. 0, 1 or 2 copies). The output is not only useful for analyses that can handle multi-allelic markers, but is also conveniently formatted for existing pipelines intended for bi-allelic markers.
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spelling GHap: An R package for genome-wide haplotypingThe GHap R package was designed to call haplotypes from phased marker data. Given user-defined haplotype blocks (HapBlock), the package identifies the different haplotype alleles (HapAllele) present in the data and scores sample haplotype allele genotypes (HapGenotype) based on HapAllele dose (i.e. 0, 1 or 2 copies). The output is not only useful for analyses that can handle multi-allelic markers, but is also conveniently formatted for existing pipelines intended for bi-allelic markers.Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Departamento de Medicina Veterinária Preventiva e Reprodução Animal UNESP - Univ. Estadual Paulista Faculdade de Ciências Agrárias e VeterináriasInternational Atomic Energy Agency (IAEA) Collaborating Centre on Animal Genomics and BioinformaticsDepartamento de Apoio Produção e Saúde Animal UNESP - Univ. Estadual Paulista Faculdade de Medicina Veterinária de AraçatubaIstituto di Zootecnica Universitá Cattolica del Sacro CuoreDepartamento de Medicina Veterinária Preventiva e Reprodução Animal UNESP - Univ. Estadual Paulista Faculdade de Ciências Agrárias e VeterináriasDepartamento de Apoio Produção e Saúde Animal UNESP - Univ. Estadual Paulista Faculdade de Medicina Veterinária de AraçatubaUniversidade Estadual Paulista (Unesp)Collaborating Centre on Animal Genomics and BioinformaticsUniversitá Cattolica del Sacro CuoreUtsunomiya, Yuri T. [UNESP]Milanesi, Marco [UNESP]Utsunomiya, Adam T. H. [UNESP]Ajmone-Marsan, PaoloGarcia, José F. [UNESP]2018-12-11T17:07:11Z2018-12-11T17:07:11Z2016-09-15info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article2861-2862application/pdfhttp://dx.doi.org/10.1093/bioinformatics/btw356Bioinformatics, v. 32, n. 18, p. 2861-2862, 2016.1460-20591367-4803http://hdl.handle.net/11449/17367210.1093/bioinformatics/btw3562-s2.0-849922025172-s2.0-84992202517.pdfScopusreponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengBioinformatics6,140info:eu-repo/semantics/openAccess2023-11-28T06:14:14Zoai:repositorio.unesp.br:11449/173672Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462023-11-28T06:14:14Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false
dc.title.none.fl_str_mv GHap: An R package for genome-wide haplotyping
title GHap: An R package for genome-wide haplotyping
spellingShingle GHap: An R package for genome-wide haplotyping
Utsunomiya, Yuri T. [UNESP]
title_short GHap: An R package for genome-wide haplotyping
title_full GHap: An R package for genome-wide haplotyping
title_fullStr GHap: An R package for genome-wide haplotyping
title_full_unstemmed GHap: An R package for genome-wide haplotyping
title_sort GHap: An R package for genome-wide haplotyping
author Utsunomiya, Yuri T. [UNESP]
author_facet Utsunomiya, Yuri T. [UNESP]
Milanesi, Marco [UNESP]
Utsunomiya, Adam T. H. [UNESP]
Ajmone-Marsan, Paolo
Garcia, José F. [UNESP]
author_role author
author2 Milanesi, Marco [UNESP]
Utsunomiya, Adam T. H. [UNESP]
Ajmone-Marsan, Paolo
Garcia, José F. [UNESP]
author2_role author
author
author
author
dc.contributor.none.fl_str_mv Universidade Estadual Paulista (Unesp)
Collaborating Centre on Animal Genomics and Bioinformatics
Universitá Cattolica del Sacro Cuore
dc.contributor.author.fl_str_mv Utsunomiya, Yuri T. [UNESP]
Milanesi, Marco [UNESP]
Utsunomiya, Adam T. H. [UNESP]
Ajmone-Marsan, Paolo
Garcia, José F. [UNESP]
description The GHap R package was designed to call haplotypes from phased marker data. Given user-defined haplotype blocks (HapBlock), the package identifies the different haplotype alleles (HapAllele) present in the data and scores sample haplotype allele genotypes (HapGenotype) based on HapAllele dose (i.e. 0, 1 or 2 copies). The output is not only useful for analyses that can handle multi-allelic markers, but is also conveniently formatted for existing pipelines intended for bi-allelic markers.
publishDate 2016
dc.date.none.fl_str_mv 2016-09-15
2018-12-11T17:07:11Z
2018-12-11T17:07:11Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://dx.doi.org/10.1093/bioinformatics/btw356
Bioinformatics, v. 32, n. 18, p. 2861-2862, 2016.
1460-2059
1367-4803
http://hdl.handle.net/11449/173672
10.1093/bioinformatics/btw356
2-s2.0-84992202517
2-s2.0-84992202517.pdf
url http://dx.doi.org/10.1093/bioinformatics/btw356
http://hdl.handle.net/11449/173672
identifier_str_mv Bioinformatics, v. 32, n. 18, p. 2861-2862, 2016.
1460-2059
1367-4803
10.1093/bioinformatics/btw356
2-s2.0-84992202517
2-s2.0-84992202517.pdf
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Bioinformatics
6,140
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv 2861-2862
application/pdf
dc.source.none.fl_str_mv Scopus
reponame:Repositório Institucional da UNESP
instname:Universidade Estadual Paulista (UNESP)
instacron:UNESP
instname_str Universidade Estadual Paulista (UNESP)
instacron_str UNESP
institution UNESP
reponame_str Repositório Institucional da UNESP
collection Repositório Institucional da UNESP
repository.name.fl_str_mv Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)
repository.mail.fl_str_mv
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