Author

Robert Davey

Norwich Research ParkORCID 0000-0002-5589-7754Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:experimental assay· 6 Research Focus:database / resource· 5 Research Focus:software / tool· 5 Research Focus:benchmarking· 4 Approach:statistical model· 3 Assay:whole-genome sequencing· 3 Approach:benchmark study· 1 Research Focus:cell type annotation· 1

Frequent Co-Authors

Nicola SoranzoiD· 4 shared Alice MinottoiD· 3 shared Anil S. ThankiiD· 3 shared Felix ShawiD· 3 shared Wilfried HaertyiD· 3 shared Alejandra N Gonzalez-BeltraniD· 2 shared Anthony EtukiD· 2 shared David JohnsoniD· 2 shared

Activity by Year

2017-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 21 mutual co-author links

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4 shared papersBioinformatics

Nicola SoranzoORCID

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Author profile →

9 papers

Recent·Most cited

The European Reference Genome Atlas: piloting a decentralised approach to equitable biodiversity genomics

Ann M. Mc Cartney, Giulio Formenti, Alice Mouton, Diego N. De Panis, Luísa S. Marins, Henrique G. Leitão, Genevieve Diedericks, Joseph Kirangwa, Marco Morselli, Judit Salces-Ortiz, Nuria Escudero, Alessio Iannucci, Chiara Natali, Hannes Svardal, Rosa Fernández, , Zophonías Oddur Jónsson

The paper describes the European Reference Genome Atlas (ERGA) pilot project, which tests a decentralized model for producing high-quality reference genomes across 98 European species.

npj Biodiversity · Sep 17, 2024Peer-reviewedGenomics

LotuS2: An ultrafast and highly accurate tool for amplicon sequencing analysis

Ezgi Özkurt, Joachim Fritscher, Nicola Soranzo, Duncan Y. K. Ng, Robert Davey, Mohammad Bahram, Falk Hildebrand

LotuS2 is a fast and accurate tool for amplicon sequencing analysis that outperforms existing pipelines in speed and diversity metrics.

Microbiome · Oct 18, 2022Peer-reviewedBioinformatics

ISA API: An open platform for interoperable life science experimental metadata

David Johnson, Dominique Batista, Keeva Cochrane, Robert Davey, Anthony Etuk, Alejandra N Gonzalez-Beltran, Kenneth Haug, Massimiliano Izzo, Martin F. Larralde, Thomas N. Lawson, Alice Minotto, Pablo A Moreno, Venkata Chandrasekhar Nainala, Claire O’Donovan, Luca Pireddu, , Philippe Rocca‐Serra

The paper introduces the ISA API, a Python library for handling ISA-Tab and ISA-JSON metadata formats, enabling programmatic manipulation and interoperability in life science experiments.

GigaScience · Sep 1, 2021Peer-reviewedBioinformatics

COPO: a metadata platform for brokering FAIR data in the life sciences

Felix Shaw, Anthony Etuk, Alice Minotto, Alejandra N Gonzalez-Beltran, David Johnson, Philippe Rocca‐Serra, Marie‐Angélique Laporte, Elizabeth Arnaud, Medha Devare, Paul Julian Kersey, Susanna‐Assunta Sansone, Robert Davey

COPO provides a metadata platform to enable FAIR data sharing in life sciences by standardizing metadata description and repository integration.

F1000Research · Jun 2, 2020Peer-reviewedBioinformatics

A Galaxy-based training resource for single-cell RNA-seq quality control and analyses.

Graham Etherington, Nicola Soranzo, Suhaib Mohammed, Wilfried Haerty, Robert Davey, Federica Di Palma

The paper develops Galaxy-based tools for scRNA-seq quality control and analysis, making the process more accessible through simple scripts and a user-friendly interface.

bioRxiv · Aug 6, 2019 · PreprintBioinformatics

TGAC Browser: an open-source genome browser for non-model organisms

Anil S. Thanki, Xingdong Bian, Robert Davey

TGAC Browser is an open-source genome browser that allows visualization of genomic data and BLAST searches without relying on public repositories or complex dependencies.

bioRxiv · Jun 24, 2019 · PreprintBioinformatics

Aequatus: An open-source homology browser

Anil S. Thanki, Nicola Soranzo, Javier Herrero, Wilfried Haerty, Robert Davey

Aequatus provides an in-depth visualization of gene structure across gene families, with options to render and filter visualizations, and is available as an open-source tool.

GigaScience · Nov 1, 2018Peer-reviewedBioinformatics

GeneSeqToFamily: the Ensembl Compara GeneTrees pipeline as a Galaxy workflow

Anil S. Thanki, Nicola Soranzo, Wilfried Haerty, Robert Davey

GeneSeqToFamily converts the Ensembl Compara GeneTrees pipeline into a Galaxy workflow for gene family analysis and visualization.

GigaScience · Feb 7, 2018Peer-reviewedBioinformatics

An improved assembly and annotation of the allohexaploid wheat genome identifies complete families of agronomic genes and provides genomic evidence for chromosomal translocations.

Bernardo Clavijo, Luca Venturini, Christian Schudoma, Gonzalo Garcia Accinelli, Gemy Kaithakottil, Jonathan Wright, Philippa Borrill, George Kettleborough, Darren Heavens, Helen Chapman, James Lipscombe, Tom Barker, Fu-Hao Lu, Neil McKenzie, Dina Raats, , Matthew D. Clark

Genome Research · May 1, 2017Peer-reviewedGenomics