Intuitive and efficient deployment of neuroimaging pipelines in clinical research with BRICpipe: Clinical neuroscience

Andreas Glatz; Colin Buchanan; Maria Valdes Hernandez; Mark Bastin; Joanna Wardlaw

Intuitive and efficient deployment of neuroimaging pipelines in clinical research with BRICpipe: Clinical neuroscience

Andreas Glatz, Colin Buchanan, Maria Valdes Hernandez, Mark Bastin, Joanna Wardlaw

Research output: Contribution to conference › Abstract › peer-review

Abstract / Description of output

In clinical research, neuroimaging pipelines are mainly used to combine the strength of single analysis tools and to accelerate the data analysis. Pipeline frameworks, such as Nipype[1] or LONI[2] (Table 1), should be a researcher’s first choice to implement pipelines. However, clinical researchers often prefer Bash[3] scripts due to their simplicity and because pipeline frameworks still require specialist knowledge for setup and use.
To encourage the use of pipeline frameworks in clinical research, we developed our own open source pipeline framework, BRICpipe. Here, we present BRICpipe’s design and some validation results to show how BRICpipe compares to Nipype and Bash scripts.

Original language	English
Publication status	Published - Sept 2012
Event	5th World INCF Neuroinformatics Congress - University Hospital Klinikum rechts der Isar der TU München, lecture building 551 Einsteinstraße 81675 München, Munich, Germany, Germany Duration: 10 Sept 2012 → 12 Sept 2012

Other

Other	5th World INCF Neuroinformatics Congress
Country/Territory	Germany
City	Munich, Germany
Period	10/09/12 → 12/09/12

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http://www.neuroinformatics2012.org/abstracts/intuitive-and-efficient-deployment-of-neuroimaging-pipelines-in-clinical-research-with-bricpipe

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Glatz, A., Buchanan, C., Valdes Hernandez, M., Bastin, M., & Wardlaw, J. (2012). Intuitive and efficient deployment of neuroimaging pipelines in clinical research with BRICpipe: Clinical neuroscience. Abstract from 5th World INCF Neuroinformatics Congress, Munich, Germany, Germany. http://www.neuroinformatics2012.org/abstracts/intuitive-and-efficient-deployment-of-neuroimaging-pipelines-in-clinical-research-with-bricpipe

@conference{e6d6f226b93844b99b3bf88052e5a746,

title = "Intuitive and efficient deployment of neuroimaging pipelines in clinical research with BRICpipe: Clinical neuroscience",

abstract = "In clinical research, neuroimaging pipelines are mainly used to combine the strength of single analysis tools and to accelerate the data analysis. Pipeline frameworks, such as Nipype[1] or LONI[2] (Table 1), should be a researcher{\textquoteright}s first choice to implement pipelines. However, clinical researchers often prefer Bash[3] scripts due to their simplicity and because pipeline frameworks still require specialist knowledge for setup and use.To encourage the use of pipeline frameworks in clinical research, we developed our own open source pipeline framework, BRICpipe. Here, we present BRICpipe{\textquoteright}s design and some validation results to show how BRICpipe compares to Nipype and Bash scripts.",

author = "Andreas Glatz and Colin Buchanan and {Valdes Hernandez}, Maria and Mark Bastin and Joanna Wardlaw",

year = "2012",

month = sep,

language = "English",

note = "5th World INCF Neuroinformatics Congress ; Conference date: 10-09-2012 Through 12-09-2012",

}

Glatz, A, Buchanan, C, Valdes Hernandez, M , Bastin, M & Wardlaw, J 2012, 'Intuitive and efficient deployment of neuroimaging pipelines in clinical research with BRICpipe: Clinical neuroscience', 5th World INCF Neuroinformatics Congress, Munich, Germany, Germany, 10/09/12 - 12/09/12. <http://www.neuroinformatics2012.org/abstracts/intuitive-and-efficient-deployment-of-neuroimaging-pipelines-in-clinical-research-with-bricpipe>

TY - CONF

T1 - Intuitive and efficient deployment of neuroimaging pipelines in clinical research with BRICpipe

T2 - 5th World INCF Neuroinformatics Congress

AU - Glatz, Andreas

AU - Buchanan, Colin

AU - Valdes Hernandez, Maria

AU - Bastin, Mark

AU - Wardlaw, Joanna

PY - 2012/9

Y1 - 2012/9

N2 - In clinical research, neuroimaging pipelines are mainly used to combine the strength of single analysis tools and to accelerate the data analysis. Pipeline frameworks, such as Nipype[1] or LONI[2] (Table 1), should be a researcher’s first choice to implement pipelines. However, clinical researchers often prefer Bash[3] scripts due to their simplicity and because pipeline frameworks still require specialist knowledge for setup and use.To encourage the use of pipeline frameworks in clinical research, we developed our own open source pipeline framework, BRICpipe. Here, we present BRICpipe’s design and some validation results to show how BRICpipe compares to Nipype and Bash scripts.

AB - In clinical research, neuroimaging pipelines are mainly used to combine the strength of single analysis tools and to accelerate the data analysis. Pipeline frameworks, such as Nipype[1] or LONI[2] (Table 1), should be a researcher’s first choice to implement pipelines. However, clinical researchers often prefer Bash[3] scripts due to their simplicity and because pipeline frameworks still require specialist knowledge for setup and use.To encourage the use of pipeline frameworks in clinical research, we developed our own open source pipeline framework, BRICpipe. Here, we present BRICpipe’s design and some validation results to show how BRICpipe compares to Nipype and Bash scripts.

M3 - Abstract

Y2 - 10 September 2012 through 12 September 2012

ER -

Intuitive and efficient deployment of neuroimaging pipelines in clinical research with BRICpipe: Clinical neuroscience

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