Productive visualization of high-throughput sequencing data using the SeqCode open portable platform

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• dc.contributor.author Blanco, Enrique
• dc.contributor.author González Ramírez, Mar, 1991-
• dc.contributor.author Di Croce, Luciano
• dc.date.accessioned 2022-01-31T12:23:32Z
• dc.date.available 2022-01-31T12:23:32Z
• dc.date.issued 2021
• dc.description.abstract Large-scale sequencing techniques to chart genomes are entirely consolidated. Stable computational methods to perform primary tasks such as quality control, read mapping, peak calling, and counting are likewise available. However, there is a lack of uniform standards for graphical data mining, which is also of central importance. To fill this gap, we developed SeqCode, an open suite of applications that analyzes sequencing data in an elegant but efficient manner. Our software is a portable resource written in ANSI C that can be expected to work for almost all genomes in any computational configuration. Furthermore, we offer a user-friendly front-end web server that integrates SeqCode functions with other graphical analysis tools. Our analysis and visualization toolkit represents a significant improvement in terms of performance and usability as compare to other existing programs. Thus, SeqCode has the potential to become a key multipurpose instrument for high-throughput professional analysis; further, it provides an extremely useful open educational platform for the world-wide scientific community. SeqCode website is hosted at http://ldicrocelab.crg.eu , and the source code is freely distributed at https://github.com/eblancoga/seqcode.
• dc.description.sponsorship The work in the Di Croce laboratory is supported by grants from the Spanish Ministry of Economy, Industry and Competitiveness (MEIC) (PID2019-108322 GB-I00), Fundación Vencer El Cancer (VEC), and the Catalan Agency for Management of University and Research Grants (AGAUR). We acknowledge support from the Spanish Ministry of Science and Innovation to the EMBL partnership Centro de Excelencia Severo Ochoa, and the CERCA Programme/Generalitat de Catalunya
• dc.format.mimetype application/pdf
• dc.identifier.citation Blanco E, González-Ramírez M, Di Croce L. Productive visualization of high-throughput sequencing data using the SeqCode open portable platform. Sci Rep. 2021 Oct 1;11(1):19545. DOI: 10.1038/s41598-021-98889-7
• dc.identifier.doi http://dx.doi.org/10.1038/s41598-021-98889-7
• dc.identifier.issn 2045-2322
• dc.identifier.uri http://hdl.handle.net/10230/52373
• dc.language.iso eng
• dc.publisher Nature Research
• dc.rights © Enrique Blanco, Mar González-Ramírez, Luciano di Croce 2021. This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made
• dc.rights.accessRights info:eu-repo/semantics/openAccess
• dc.rights.uri https://creativecommons.org/licenses/by/4.0/
• dc.subject.other Genòmica
• dc.subject.other Programari
• dc.title Productive visualization of high-throughput sequencing data using the SeqCode open portable platform
• dc.type info:eu-repo/semantics/article
• dc.type.version info:eu-repo/semantics/publishedVersion