Literature DB >> 25976062

ISAC's Gating-ML 2.0 data exchange standard for gating description.

Josef Spidlen1, Wayne Moore2, Ryan R Brinkman1,3.   

Abstract

The lack of software interoperability with respect to gating has traditionally been a bottleneck preventing the use of multiple analytical tools and reproducibility of flow cytometry data analysis by independent parties. To address this issue, ISAC developed Gating-ML, a computer file format to encode and interchange gates. Gating-ML 1.5 was adopted and published as an ISAC Candidate Recommendation in 2008. Feedback during the probationary period from implementors, including major commercial software companies, instrument vendors, and the wider community, has led to a streamlined Gating-ML 2.0. Gating-ML has been significantly simplified and therefore easier to support by software tools. To aid developers, free, open source reference implementations, compliance tests, and detailed examples are provided to stimulate further commercial adoption. ISAC has approved Gating-ML as a standard ready for deployment in the public domain and encourages its support within the community as it is at a mature stage of development having undergone extensive review and testing, under both theoretical and practical conditions.
© 2015 International Society for Advancement of Cytometry.

Entities:  

Keywords:  bioinformatics; data standard; file format; flow cytometry; gating

Mesh:

Year:  2015        PMID: 25976062      PMCID: PMC4874733          DOI: 10.1002/cyto.a.22690

Source DB:  PubMed          Journal:  Cytometry A        ISSN: 1552-4922            Impact factor:   4.355


  6 in total

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3.  Proposed new data file standard for flow cytometry, version FCS 3.0.

Authors:  L C Seamer; C B Bagwell; L Barden; D Redelman; G C Salzman; J C Wood; R F Murphy
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4.  Data file standard for flow cytometry. Data File Standards Committee of the Society for Analytical Cytology.

Authors: 
Journal:  Cytometry       Date:  1990

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Authors:  Josef Spidlen; Chris Bray; Ryan R Brinkman
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6.  Gating-ML: XML-based gating descriptions in flow cytometry.

Authors:  Josef Spidlen; Robert C Leif; Wayne Moore; Mario Roederer; Ryan R Brinkman
Journal:  Cytometry A       Date:  2008-12       Impact factor: 4.355

  6 in total
  6 in total

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Journal:  J Immunother Cancer       Date:  2016-11-15       Impact factor: 13.751

5.  The Computational article format: Software as a research output.

Authors:  Greg Finak
Journal:  Cytometry A       Date:  2018-12       Impact factor: 4.355

6.  FlowKit: A Python Toolkit for Integrated Manual and Automated Cytometry Analysis Workflows.

Authors:  Scott White; John Quinn; Jennifer Enzor; Janet Staats; Sarah M Mosier; James Almarode; Thomas N Denny; Kent J Weinhold; Guido Ferrari; Cliburn Chan
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  6 in total

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