Badger—an accessible genome exploration environment

Summary: High-quality draft genomes are now easy to generate, as sequencing and assembly costs have dropped dramatically. However, building a user-friendly searchable Web site and database for a newly annotated genome is not straightforward. Here we present Badger, a lightweight and easy-to-install...

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Detalles Bibliográficos
Autores principales: Elsworth, Ben, Jones, Martin, Blaxter, Mark
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2013
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3799468/
https://www.ncbi.nlm.nih.gov/pubmed/23940251
http://dx.doi.org/10.1093/bioinformatics/btt466
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author Elsworth, Ben
Jones, Martin
Blaxter, Mark
author_facet Elsworth, Ben
Jones, Martin
Blaxter, Mark
author_sort Elsworth, Ben
collection PubMed
description Summary: High-quality draft genomes are now easy to generate, as sequencing and assembly costs have dropped dramatically. However, building a user-friendly searchable Web site and database for a newly annotated genome is not straightforward. Here we present Badger, a lightweight and easy-to-install genome exploration environment designed for next generation non-model organism genomes. Availability: Badger is released under the GPL and is available at http://badger.bio.ed.ac.uk/. We show two working examples: (i) a test dataset included with the source code, and (ii) a collection of four filarial nematode genomes. Contact: mark.blaxter@ed.ac.uk
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spelling pubmed-37994682013-10-18 Badger—an accessible genome exploration environment Elsworth, Ben Jones, Martin Blaxter, Mark Bioinformatics Applications Notes Summary: High-quality draft genomes are now easy to generate, as sequencing and assembly costs have dropped dramatically. However, building a user-friendly searchable Web site and database for a newly annotated genome is not straightforward. Here we present Badger, a lightweight and easy-to-install genome exploration environment designed for next generation non-model organism genomes. Availability: Badger is released under the GPL and is available at http://badger.bio.ed.ac.uk/. We show two working examples: (i) a test dataset included with the source code, and (ii) a collection of four filarial nematode genomes. Contact: mark.blaxter@ed.ac.uk Oxford University Press 2013-11-01 2013-08-11 /pmc/articles/PMC3799468/ /pubmed/23940251 http://dx.doi.org/10.1093/bioinformatics/btt466 Text en © The Author 2013. Published by Oxford University Press. http://creativecommons.org/licenses/by/3.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/3.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Notes
Elsworth, Ben
Jones, Martin
Blaxter, Mark
Badger—an accessible genome exploration environment
title Badger—an accessible genome exploration environment
title_full Badger—an accessible genome exploration environment
title_fullStr Badger—an accessible genome exploration environment
title_full_unstemmed Badger—an accessible genome exploration environment
title_short Badger—an accessible genome exploration environment
title_sort badger—an accessible genome exploration environment
topic Applications Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3799468/
https://www.ncbi.nlm.nih.gov/pubmed/23940251
http://dx.doi.org/10.1093/bioinformatics/btt466
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