bioKepler statistics

info info

Citations per year

Number of citations per year for the bioinformatics software tool bioKepler
info

Tool usage distribution map

This map represents all the scientific publications referring to bioKepler per scientific context
info info

Associated diseases

info

Popular tool citations

chevron_left Workflow management systems chevron_right
Want to access the full stats & trends on this tool?

bioKepler specifications

Information


Unique identifier OMICS_01139
Name bioKepler
Software type Framework/Library
Interface Command line interface, Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainers


  • person_outline Weizhong Li
  • person_outline Ilkay Altintas

bioKepler citations

 (6)
library_books

Challenges, Solutions, and Quality Metrics of Personal Genome Assembly in Advancing Precision Medicine

2016
PMCID: 4932478
PMID: 27110816
DOI: 10.3390/pharmaceutics8020015

[…] ife Technologies’ LifeScope cloud computing service, which provides one core of a 2.4-GHz Xeon processor with a 4 GB memory for $0.17 per core hour. There are also open source cloud solutions such as BioKepler, GenomeSpace, and Cloud BioLinux, which are accessible through Amazon EC2 cloud, as well as downloadable versions [,,].Infrastructure as a service (IaaS): In this model, the service provider […]

library_books

Mapping cell populations in flow cytometry data for cross‐sample comparison using the Friedman–Rafsky test statistic as a distance measure

2015
Cytometry
PMCID: 5014134
PMID: 26274018
DOI: 10.1002/cyto.a.22735

[…] oconductor package (http://www.bioconductor.org/packages/devel/bioc/html/flowMap.html). We are also in the process of implementing and incorporating FlowMap‐FR into the GenePattern FCM suite and the bioKepler workflow platform , so that it can be used along with other FCM data processing and analytical methods that have been deployed in these platforms. A common FCM computational workflow consist […]

library_books

Trends in IT Innovation to Build a Next Generation Bioinformatics Solution to Manage and Analyse Biological Big Data Produced by NGS Technologies

2015
Biomed Res Int
PMCID: 4466500
PMID: 26125026
DOI: 10.1155/2015/904541

[…] ful distributed computing options to distribute workflow execution on cluster, grid, or cloud.Recently, Kepler has been used for bioinformatics purposes. For intensive computing and NGS analysis, the bioKepler project [] has been initiated. The bioKepler module is an extension for Kepler that integrates bioinformatics components in order to execute bioinformatics tools (e.g., BLAST [] and HMMER [] […]

library_books

A RESTful API for Access to Phylogenetic Tools via the CIPRES Science Gateway

2015
Evol Bioinform Online
PMCID: 4362911
PMID: 25861210
DOI: 10.4137/EBO.S21501

[…] CRA services will also be made available through the web application offered by the National Center for Genome Analysis Support (NCGAS). Plans are also under way to incorporate CRA services into the bioKepler workflow tool, so that CRA tree inference services can be incorporated into more complex workflows in a visual programming environment.The CIPRES group is developing worked examples/code sam […]

library_books

Cytoscape: the network visualization tool for GenomeSpace workflows

2014
F1000Res
PMCID: 4133763
PMID: 25165537
DOI: 10.5256/f1000research.4805.r5291

[…] brief app demonstration highlighting the resulting user interface and data transfer functionality.While there exists a number of workflow engines that can perform biological analyses (e.g., Taverna , BioKepler , and Galaxy ), GenomeSpace distinguishes itself by combining a collaboration-oriented file system (incorporating sharing and stored metadata), a robust and user-extensible spectrum of genom […]

library_books

Workflows for microarray data processing in the Kepler environment

2012
BMC Bioinformatics
PMCID: 3431220
PMID: 22594911
DOI: 10.1186/1471-2105-13-102

[…] ble to develop a straightforward solution to this issue (creating a script then executing). Finally, there are far fewer prepackaged bioinformatics resources in Kepler as compared to Taverna, but the bioKepler project [] should change this situation.Making Kepler workflows more widely accessible, e.g., through popular workflow repositories [], will allow pipeline developers to share workflows more […]


Want to access the full list of citations?
bioKepler institution(s)
San Diego Supercomputer Center University of California, San Diego, CA, USA; Center for Research in Biological Systems University of California, San Diego, CA, USA
bioKepler funding source(s)
Supported by NSF SDCI Award OCI-0722079 for Kepler/CORE, NSF ABI Award DBI-1062565 for bioKepler, the Gordon and Betty Moore Foundation award to Calit2 at UCSD for CAMERA, and an SDSC Triton Research Opportunities grant.

bioKepler reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review bioKepler