ZFIQ: Zebrafish image quantitator

Tianming Liu; Jingxin Nie; Gang Li; Lei Guo; Stephen T. Wong

doi:10.1109/LSSA.2007.4400884

ZFIQ: Zebrafish image quantitator

Tianming Liu, Jingxin Nie, Gang Li, Lei Guo, Stephen T. Wong

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

1 Scopus citations

Abstract

A free software platform (ZFIQ: zebrafish image quantitator) is being developed for automatic analysis and quantification of image-based phenotypes in zebrafish biology. This platform allows end users to dynamically construct image quantification pipelines in an interactive graphical environment, in which hundreds of basic and advanced image analysis functionalities have already been integrated. The constructed pipeline can be saved as a protocol for later use or be distributed to other users. The protocol can run in a batch mode so that large amount of image datasets can be analyzed automatically. The open architecture of ZFIQ allows developers to plug-in their own specific image analysis functionalities into the platform seamlessly. We will exemplify the ZFIQ by pipelines of automatic analysis and quantitation of phenotypes in zebrafish with altered expression of Alzheimer disease (AD)-linked genes and in study of retina development and somitogenesis. This ZFIQ software package is available for free download at: http://www.cbi-platform.net.

Original language	English (US)
Title of host publication	2007 IEEE/NIH Life Science Systems and Applications Workshop, LISA
Publisher	Institute of Electrical and Electronics Engineers Inc.
Pages	59-62
Number of pages	4
ISBN (Print)	9781424418138
DOIs	https://doi.org/10.1109/LSSA.2007.4400884
State	Published - Jan 1 2007
Event	2007 IEEE/NIH Life Science Systems and Applications Workshop, LISA - Bethesda, MD, United States Duration: Nov 8 2007 → Nov 9 2007

Other

Other	2007 IEEE/NIH Life Science Systems and Applications Workshop, LISA
Country/Territory	United States
City	Bethesda, MD
Period	11/8/07 → 11/9/07

ASJC Scopus subject areas

Computer Science Applications
Information Systems

Access to Document

10.1109/LSSA.2007.4400884

Cite this

Liu, T, Nie, J, Li, G, Guo, L & Wong, ST 2007, ZFIQ: Zebrafish image quantitator. in 2007 IEEE/NIH Life Science Systems and Applications Workshop, LISA., 4400884, Institute of Electrical and Electronics Engineers Inc., pp. 59-62, 2007 IEEE/NIH Life Science Systems and Applications Workshop, LISA, Bethesda, MD, United States, 11/8/07. https://doi.org/10.1109/LSSA.2007.4400884

@inproceedings{c6517e1100094d808b6128ab50d43f79,

title = "ZFIQ: Zebrafish image quantitator",

abstract = "A free software platform (ZFIQ: zebrafish image quantitator) is being developed for automatic analysis and quantification of image-based phenotypes in zebrafish biology. This platform allows end users to dynamically construct image quantification pipelines in an interactive graphical environment, in which hundreds of basic and advanced image analysis functionalities have already been integrated. The constructed pipeline can be saved as a protocol for later use or be distributed to other users. The protocol can run in a batch mode so that large amount of image datasets can be analyzed automatically. The open architecture of ZFIQ allows developers to plug-in their own specific image analysis functionalities into the platform seamlessly. We will exemplify the ZFIQ by pipelines of automatic analysis and quantitation of phenotypes in zebrafish with altered expression of Alzheimer disease (AD)-linked genes and in study of retina development and somitogenesis. This ZFIQ software package is available for free download at: http://www.cbi-platform.net.",

author = "Tianming Liu and Jingxin Nie and Gang Li and Lei Guo and Wong, {Stephen T.}",

year = "2007",

month = jan,

day = "1",

doi = "10.1109/LSSA.2007.4400884",

language = "English (US)",

isbn = "9781424418138",

pages = "59--62",

booktitle = "2007 IEEE/NIH Life Science Systems and Applications Workshop, LISA",

publisher = "Institute of Electrical and Electronics Engineers Inc.",

address = "United States",

note = "2007 IEEE/NIH Life Science Systems and Applications Workshop, LISA ; Conference date: 08-11-2007 Through 09-11-2007",

}

TY - GEN

T1 - ZFIQ

T2 - 2007 IEEE/NIH Life Science Systems and Applications Workshop, LISA

AU - Liu, Tianming

AU - Nie, Jingxin

AU - Li, Gang

AU - Guo, Lei

AU - Wong, Stephen T.

PY - 2007/1/1

Y1 - 2007/1/1

N2 - A free software platform (ZFIQ: zebrafish image quantitator) is being developed for automatic analysis and quantification of image-based phenotypes in zebrafish biology. This platform allows end users to dynamically construct image quantification pipelines in an interactive graphical environment, in which hundreds of basic and advanced image analysis functionalities have already been integrated. The constructed pipeline can be saved as a protocol for later use or be distributed to other users. The protocol can run in a batch mode so that large amount of image datasets can be analyzed automatically. The open architecture of ZFIQ allows developers to plug-in their own specific image analysis functionalities into the platform seamlessly. We will exemplify the ZFIQ by pipelines of automatic analysis and quantitation of phenotypes in zebrafish with altered expression of Alzheimer disease (AD)-linked genes and in study of retina development and somitogenesis. This ZFIQ software package is available for free download at: http://www.cbi-platform.net.

AB - A free software platform (ZFIQ: zebrafish image quantitator) is being developed for automatic analysis and quantification of image-based phenotypes in zebrafish biology. This platform allows end users to dynamically construct image quantification pipelines in an interactive graphical environment, in which hundreds of basic and advanced image analysis functionalities have already been integrated. The constructed pipeline can be saved as a protocol for later use or be distributed to other users. The protocol can run in a batch mode so that large amount of image datasets can be analyzed automatically. The open architecture of ZFIQ allows developers to plug-in their own specific image analysis functionalities into the platform seamlessly. We will exemplify the ZFIQ by pipelines of automatic analysis and quantitation of phenotypes in zebrafish with altered expression of Alzheimer disease (AD)-linked genes and in study of retina development and somitogenesis. This ZFIQ software package is available for free download at: http://www.cbi-platform.net.

UR - http://www.scopus.com/inward/record.url?scp=50849099484&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=50849099484&partnerID=8YFLogxK

U2 - 10.1109/LSSA.2007.4400884

DO - 10.1109/LSSA.2007.4400884

M3 - Conference contribution

SN - 9781424418138

SP - 59

EP - 62

BT - 2007 IEEE/NIH Life Science Systems and Applications Workshop, LISA

PB - Institute of Electrical and Electronics Engineers Inc.

Y2 - 8 November 2007 through 9 November 2007

ER -

ZFIQ: Zebrafish image quantitator

Abstract

Other

ASJC Scopus subject areas

Access to Document

Other files and links

Fingerprint

Cite this