checkMyIndex: a web-based R/Shiny interface for choosing compatible sequencing indexes

SUMMARY: When sequencing several libraries simultaneously, the selection of compatible combinations of indexes is critical for ensuring that the sequencer will be able to decipher the short, sample-specific barcodes added to each fragment. However, researchers have few tools to help them choose opti...

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Detalles Bibliográficos
Autores principales: Varet, Hugo, Coppée, Jean-Yves
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2019
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6394397/
https://www.ncbi.nlm.nih.gov/pubmed/30165585
http://dx.doi.org/10.1093/bioinformatics/bty706
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author Varet, Hugo
Coppée, Jean-Yves
author_facet Varet, Hugo
Coppée, Jean-Yves
author_sort Varet, Hugo
collection PubMed
description SUMMARY: When sequencing several libraries simultaneously, the selection of compatible combinations of indexes is critical for ensuring that the sequencer will be able to decipher the short, sample-specific barcodes added to each fragment. However, researchers have few tools to help them choose optimal indexes. Here, we present checkMyIndex, an online R/Shiny application that facilitates the selection of the right indexes as a function of the experimental constraints. AVAILABILITY AND IMPLEMENTATION: checkMyIndex is available free of charge at https://checkmyindex.pasteur.fr as an online, web-based R/Shiny application. The source code is available on GitHub at https://github.com/PF2-pasteur-fr/checkMyIndex.
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spelling pubmed-63943972019-03-05 checkMyIndex: a web-based R/Shiny interface for choosing compatible sequencing indexes Varet, Hugo Coppée, Jean-Yves Bioinformatics Applications Notes SUMMARY: When sequencing several libraries simultaneously, the selection of compatible combinations of indexes is critical for ensuring that the sequencer will be able to decipher the short, sample-specific barcodes added to each fragment. However, researchers have few tools to help them choose optimal indexes. Here, we present checkMyIndex, an online R/Shiny application that facilitates the selection of the right indexes as a function of the experimental constraints. AVAILABILITY AND IMPLEMENTATION: checkMyIndex is available free of charge at https://checkmyindex.pasteur.fr as an online, web-based R/Shiny application. The source code is available on GitHub at https://github.com/PF2-pasteur-fr/checkMyIndex. Oxford University Press 2019-03-01 2018-08-25 /pmc/articles/PMC6394397/ /pubmed/30165585 http://dx.doi.org/10.1093/bioinformatics/bty706 Text en © The Author(s) 2018. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Applications Notes
Varet, Hugo
Coppée, Jean-Yves
checkMyIndex: a web-based R/Shiny interface for choosing compatible sequencing indexes
title checkMyIndex: a web-based R/Shiny interface for choosing compatible sequencing indexes
title_full checkMyIndex: a web-based R/Shiny interface for choosing compatible sequencing indexes
title_fullStr checkMyIndex: a web-based R/Shiny interface for choosing compatible sequencing indexes
title_full_unstemmed checkMyIndex: a web-based R/Shiny interface for choosing compatible sequencing indexes
title_short checkMyIndex: a web-based R/Shiny interface for choosing compatible sequencing indexes
title_sort checkmyindex: a web-based r/shiny interface for choosing compatible sequencing indexes
topic Applications Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6394397/
https://www.ncbi.nlm.nih.gov/pubmed/30165585
http://dx.doi.org/10.1093/bioinformatics/bty706
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