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Number of citations per year for the bioinformatics software tool Biowep

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Biowep specifications


Unique identifier OMICS_25136
Name Biowep
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
License GNU Lesser General Public License version 3.0
Computer skills Advanced
Maintained Yes


No version available


  • person_outline Ezio Bartocci
  • person_outline Guglielmo Bertolini
  • person_outline Flavio De Paoli

Publication for Biowep

Biowep citations


BOWS (bioinformatics open web services) to centralize bioinformatics tools in web services

BMC Res Notes
PMCID: 4467627
PMID: 26032494
DOI: 10.1186/s13104-015-1190-0

[…] ent methods can be incorporated together with workflow engines such as Taverna [], Kepler [], or Galaxy [] and access to them can be made available by web services. Recently, workflow portals such as Biowep [] (Workflow Enactment Portal for Bioinformatics) and BioVeL [] (Biodiversity Virtual e-Laboratory) were organized providing browser-based interfaces and also web services interfaces for remote […]


A knowledge based decision support system in bioinformatics: an application to protein complex extraction

BMC Bioinformatics
PMCID: 3548703
PMID: 23368995
DOI: 10.1186/1471-2105-14-S1-S5

[…] kflow produced by Taverna. In this way, users can interact with a piece of data, such as for example an annotation of a genomic region, during the workflow execution.Other WFMS for bioinformatics are Biowep [], that allows the user to search and run a predefined set of workflows, already tested, validated and annotated; and BioWMS [], that is a web-based WFMS built upon an agent-based middle ware […]


Agile parallel bioinformatics workflow management using Pwrake

BMC Res Notes
PMCID: 3180464
PMID: 21899774
DOI: 10.1186/1756-0500-4-331

[…] arises to satisfy the four aspects mentioned above. Therefore, full-featured scientific workflow systems including Biopipe [], Pegasus [], Ptolemy II [], Taverna [], Pegasys [], Kepler [], Triana [], Biowep [], Swift [], BioWMS [], Cyrille2 [], KNIME [], Ergatis [], and Galaxy [] have been applied in the bioinformatics domain. Their features, however, have some disadvantages for actual practices i […]


A lightweight, flow based toolkit for parallel and distributed bioinformatics pipelines

BMC Bioinformatics
PMCID: 3051902
PMID: 21352538
DOI: 10.1186/1471-2105-12-61

[…] IME[]), frameworks for creating abstracted workflows suitable for enactment in grid environments (e.g., PEGASUS[]), high-level "enactment portals" that require less programming effort by users (e.g., BIOWEP[]), or flower-level software libraries (e.g., the Perl-based BIOPIPE[]). Indeed, the recent proliferation of WMS technologies and implementations led Deelman et al. [] to systematically study a […]


AMMO Prot: amine system project 3D model finder

BMC Bioinformatics
PMCID: 2367632
PMID: 18460178
DOI: 10.1186/1471-2105-9-S4-S5

[…] BioMoby workflows. The interface was simplified using the standard scheme of the traffic lights colour code (red, green and amber). It can only use its own workflow created by its own web interface. BIOWep [] allows users to execute predefined workflows. It supports workflow annotation by using a simple ontology for bioinformatics processors (domain, task, i/o, etc.) and implements the search and […]


Comparative phyloinformatics of virus genes at micro and macro levels in a distributed computing environment

BMC Bioinformatics
PMCID: 2259424
PMID: 18315855
DOI: 10.1186/1471-2105-9-S1-S23
call_split See protocol

[…] cripting languages, such as Perl, Python, Java, and UNIX-scripts. Recent examples of such systems in bioinformatics include Biopipe [], BioWBI [], Taverna [], Wildfire[], KDE Biosciences [], gRNA [], Biowep [], and BioWMS []. Each deployment is therefore subject to its own code development and testing. Although programming languages offer sophisticated control over the intended procedure, the lear […]

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Biowep institution(s)
Bioinformatics and Structural Proteomics, National Cancer Research Institute (IST), Genova, Italy; Department of Mathematics and Computer Science (DMI), University of Camerino, Camerino (MC), Italy; Department of Informatics, Systems and Communication (DISCo), University of Milan "Bicocca", Milano, Italy; Biomedical Technologies Institute (ITB), National Research Council, Milano, Italy and 5CILEA, Segrate (MI), Italy
Biowep funding source(s)
Supported by the Italian Ministry of Education, University and Research (MIUR), projects "Oncology over Internet – O2I" and "Laboratory of Interdisciplinary Technologies in Bioinformatics – LITBIO".

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