XiP: a computational environment to create, extend and share workflows

XiP (eXtensible integrative Pipeline) is a flexible, editable and modular environment with a user-friendly interface that does not require previous advanced programming skills to run, construct and edit workflows. XiP allows the construction of workflows by linking components written in both R and J...

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Detalles Bibliográficos
Autores principales: Nagasaki, Masao, Fujita, André, Sekiya, Yayoi, Saito, Ayumu, Ikeda, Emi, Li, Chen, Miyano, Satoru
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2013
Materias:
Applications Note
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3530915/
https://www.ncbi.nlm.nih.gov/pubmed/23104885
http://dx.doi.org/10.1093/bioinformatics/bts630
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author Nagasaki, Masao
Fujita, André
Sekiya, Yayoi
Saito, Ayumu
Ikeda, Emi
Li, Chen
Miyano, Satoru
author_facet Nagasaki, Masao
Fujita, André
Sekiya, Yayoi
Saito, Ayumu
Ikeda, Emi
Li, Chen
Miyano, Satoru
author_sort Nagasaki, Masao
collection PubMed
description XiP (eXtensible integrative Pipeline) is a flexible, editable and modular environment with a user-friendly interface that does not require previous advanced programming skills to run, construct and edit workflows. XiP allows the construction of workflows by linking components written in both R and Java, the analysis of high-throughput data in grid engine systems and also the development of customized pipelines that can be encapsulated in a package and distributed. XiP already comes with several ready-to-use pipeline flows for the most common genomic and transcriptomic analysis and ∼300 computational components. Availability: XiP is open source, freely available under the Lesser General Public License (LGPL) and can be downloaded from http://xip.hgc.jp. Contact: nagasaki@megabank.tohoku.ac.jp
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spelling pubmed-35309152012-12-27 XiP: a computational environment to create, extend and share workflows Nagasaki, Masao Fujita, André Sekiya, Yayoi Saito, Ayumu Ikeda, Emi Li, Chen Miyano, Satoru Bioinformatics Applications Note XiP (eXtensible integrative Pipeline) is a flexible, editable and modular environment with a user-friendly interface that does not require previous advanced programming skills to run, construct and edit workflows. XiP allows the construction of workflows by linking components written in both R and Java, the analysis of high-throughput data in grid engine systems and also the development of customized pipelines that can be encapsulated in a package and distributed. XiP already comes with several ready-to-use pipeline flows for the most common genomic and transcriptomic analysis and ∼300 computational components. Availability: XiP is open source, freely available under the Lesser General Public License (LGPL) and can be downloaded from http://xip.hgc.jp. Contact: nagasaki@megabank.tohoku.ac.jp Oxford University Press 2013-01 2012-10-25 /pmc/articles/PMC3530915/ /pubmed/23104885 http://dx.doi.org/10.1093/bioinformatics/bts630 Text en © The Author 2012. 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 use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Note
Nagasaki, Masao
Fujita, André
Sekiya, Yayoi
Saito, Ayumu
Ikeda, Emi
Li, Chen
Miyano, Satoru
XiP: a computational environment to create, extend and share workflows
title XiP: a computational environment to create, extend and share workflows
title_full XiP: a computational environment to create, extend and share workflows
title_fullStr XiP: a computational environment to create, extend and share workflows
title_full_unstemmed XiP: a computational environment to create, extend and share workflows
title_short XiP: a computational environment to create, extend and share workflows
title_sort xip: a computational environment to create, extend and share workflows
topic Applications Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3530915/
https://www.ncbi.nlm.nih.gov/pubmed/23104885
http://dx.doi.org/10.1093/bioinformatics/bts630
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