flowType protocols

flowType statistics

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flowType specifications

Information


Unique identifier OMICS_05613
Name flowType
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License Artistic License version 2.0
Computer skills Advanced
Version 2.18.0
Stability Stable
Requirements
R(>=2.10), xtable, Rcpp(>=0.10.4), BH(>=1.51.0-3)
Maintained Yes

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Publication for flowType

flowType in pipeline

2016
PMCID: 5005935
PMID: 27630823
DOI: 10.3389/fonc.2016.00188

[…] distinct classes and identifying phenotypes (, , ). a number of open-source r packages have been developed to solve different steps, such as flowcore, flowviz, flowclust, flowtrans, flowstats, and flowtype packages in bioconductor (). several other web-based platforms are also available for automated fc data analysis, such as immport (), genepattern (), and cytobank ()., the aforementioned […]


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flowType in publications

 (5)
PMCID: 5018825
PMID: 27616181
DOI: 10.1038/srep33029

[…] a 2d numerical prediction obtained for newtonian creeping flow and illustrates the homogeneity of the flow field over the central region of the geometry. it is also possible to locally evaluate the flowtype parameter, according to the criterion of astarita. the flowtype parameter is defined as:, , where and are the magnitudes of the deformation rate and vorticity tensors, respectively., […]

PMCID: 5005935
PMID: 27630823
DOI: 10.3389/fonc.2016.00188

[…] distinct classes and identifying phenotypes (, , ). a number of open-source r packages have been developed to solve different steps, such as flowcore, flowviz, flowclust, flowtrans, flowstats, and flowtype packages in bioconductor (). several other web-based platforms are also available for automated fc data analysis, such as immport (), genepattern (), and cytobank ()., the aforementioned […]

PMCID: 3867282
PMID: 24363631
DOI: 10.1371/journal.pcbi.1003365

[…] clustering is to identify cell populations using one marker at a time and then combine them to produce higher-dimensional clusters. this functionality was first implemented in flowjo . the flowtype algorithm builds on this framework by allowing the exclusion of the markers . this enables the development of statistical tools (e.g., rchyoptimyx) that can investigate the importance […]

PMCID: 3701052
PMID: 23843942
DOI: 10.1371/journal.pone.0065485

[…] between the medians of the positive and negative populations and w  =  spread (2×rsd) of the negative population ., the details of the methodology are described elsewhere , , . briefly, the flowtype pipeline was used to identify cell populations, and the immunophenotypes with high area under the curve (auc) score after a receiver operating characteristic (roc) curve analysis […]

PMCID: 3467643
PMID: 23087687
DOI: 10.3389/fimmu.2012.00302

[…] flowmeans event clustering algorithm identified human peripheral t cell subset phenotype groups that were informative for predicting clinical progression to aids based on an analysis pipeline called flowtype (chattopadhyay and roederer, ). given the various programs’ complexity and developmental status, determining which of the increasing number of available analysis algorithms would […]


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flowType institution(s)
Terry Fox Laboratory, British Columbia Cancer Agency, Vancouver, BC, Canada

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