flowTrans protocols

flowTrans statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Data transformation chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

flowTrans specifications

Information


Unique identifier OMICS_05612
Name flowTrans
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 1.32.0
Stability Stable
Requirements
methods, stats, R(>=2.11.0), flowCore, flowViz, flowClust
Maintained Yes

Versioning


Add your version

Documentation


Publication for flowTrans

flowTrans in pipeline

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

[…] categorizing samples into 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 […]


To access a full list of citations, you will need to upgrade to our premium service.

flowTrans in publications

 (4)
PMCID: 5005935
PMID: 27630823
DOI: 10.3389/fonc.2016.00188

[…] categorizing samples into 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 […]

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

[…] across samples on a per‐channel basis before cell population mapping to further improve the results. many software and computer programs are available for this data transformation purpose, such as flowtrans , fcstrans (the method used in this article ), fcs2csv , and so on, before mapping cell populations in flowmap‐fr., however, in some experimental scenarios, marker expression shifts reflect […]

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

[…] and box-cox transformations, when optimally parameterized, provided the clearest visualization and least variance of cell populations across samples . however, a later comparison of the flowtrans package used in that comparison indicated that it did not parameterize the logicle transformation in a manner consistent with other implementations, potentially calling those results […]

PMCID: 3341382
PMID: 22563466
DOI: 10.1371/journal.pone.0035693

[…] the default logicle transformation to treg data, for each of the markers foxp3, cd25 and hladr, we observed a significant “negative cluster” (). then we tried to optimize the display with the flowtrans package, but the problem persisted (). to address the problem, we sought an optimal transformation that would remove the negative cluster while making the populations more normally […]


To access a full list of publications, you will need to upgrade to our premium service.

flowTrans institution(s)
Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA

flowTrans reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review flowTrans