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ASSIsT: an automatic SNP scoring tool for in- and outbreeding species
dc.contributor.author | Di Guardo, Mario | |
dc.contributor.author | Micheletti, Diego | |
dc.contributor.author | Bianco, Luca | |
dc.contributor.author | Koehorst-van Putten, Herma J. J. | |
dc.contributor.author | Longhi, Sara | |
dc.contributor.author | Costa, Fabrizio | |
dc.contributor.author | Aranzana, Maria Jose | |
dc.contributor.author | Velasco, Riccardo | |
dc.contributor.author | Arús, Pere | |
dc.contributor.author | Troggio, Michela | |
dc.contributor.author | van de Weg, Eric W. | |
dc.contributor.other | Producció Vegetal | ca |
dc.date.accessioned | 2024-09-06T19:17:03Z | |
dc.date.available | 2024-09-06T19:17:03Z | |
dc.date.issued | 2015-08-06 | |
dc.identifier.citation | Di Guardo, Mario, Diego Micheletti, Luca Bianco, Herma J. J. Koehorst-Van Putten, Sara Longhi, Fabrizio Costa, Maria J. Aranzana, et al. 2015. “ASSIsT: An Automatic SNP Scoring Tool for In- and Outbreeding Species.” Bioinformatics 31 (23): 3873–74. https://doi.org/10.1093/bioinformatics/btv446. | ca |
dc.identifier.issn | 1367-4803 | ca |
dc.identifier.uri | http://hdl.handle.net/20.500.12327/3195 | |
dc.description.abstract | ASSIsT (Automatic SNP ScorIng Tool) is a user-friendly customized pipeline for efficient calling and filtering of SNPs from Illumina Infinium arrays, specifically devised for custom genotyping arrays. Illumina has developed an integrated software for SNP data visualization and inspection called GenomeStudioV R (GS). ASSIsT builds on GS-derived data and identifies those markers that follow a bi-allelic genetic model and show reliable genotype calls. Moreover, ASSIsT re-edits SNP calls with null alleles or additional SNPs in the probe annealing site. ASSIsT can be employed in the analysis of different population types such as full-sib families and mating schemes used in the plant kingdom (backcross, F1, F2), and unrelated individuals. The final result can be directly exported in the format required by the most common software for genetic mapping and marker–trait association analysis. ASSIsT is developed in Python and runs in Windows and Linux. | ca |
dc.format.extent | 2 | ca |
dc.language.iso | eng | ca |
dc.publisher | Oxford University Press | ca |
dc.relation.ispartof | Bioinformatics | ca |
dc.rights | Attribution-NonCommercial 4.0 International | ca |
dc.rights.uri | http://creativecommons.org/licenses/by-nc/4.0/ | * |
dc.title | ASSIsT: an automatic SNP scoring tool for in- and outbreeding species | ca |
dc.type | info:eu-repo/semantics/article | ca |
dc.description.version | info:eu-repo/semantics/publishedVersion | ca |
dc.rights.accessLevel | info:eu-repo/semantics/openAccess | |
dc.embargo.terms | cap | ca |
dc.relation.projectID | EC/FP7/265582/EU/Integrated approach for increasing breeding efficiency in fruit tree crops/FRUIT BREEDOMICS | ca |
dc.subject.udc | 575 | ca |
dc.identifier.doi | https://doi.org/10.1093/bioinformatics/btv446 | ca |
dc.contributor.group | Genòmica i Biotecnologia | ca |
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