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flowStats specifications

Information


Unique identifier OMICS_05611
Name flowStats
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 3.38.0
Stability Stable
Requirements
methods, stats, graphics, BiocGenerics, Biobase, utils, grDevices, lattice, R(>=2.10), MASS, cluster, KernSmooth, xtable, flowCore, flowViz, flowWorkspace, fda(>=2.2.6), ncdfFlow(>=2.19.5), ks
Maintained Yes

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Documentation


flowStats in pipelines

 (2)
2016
PMCID: 5005935
PMID: 27630823
DOI: 10.3389/fonc.2016.00188

[…] 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 ()., […]

2016
PMCID: 5179518
PMID: 28066414
DOI: 10.3389/fimmu.2016.00603

[…] bd biosciences) containing both positive and negative populations., flow cytometry data analysis was performed using the r programming language for statistical computing including the flowcore (), flowstats () r packages, or with the flowjo software (tree star). gating strategy involved the following sequential steps: gating on lymphocytes based on forward and side scatter, doublet-exclusion […]


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flowStats in publications

 (5)
PMCID: 5552689
PMID: 28798322
DOI: 10.1038/s41598-017-07851-z

[…] exported as fcs3.0 files using the facsuite software. the fcs files were read using bioconductor’s package flowcore in the r software language. finally, the cytometry data were normalized using the flowstats package and gated. first, a general lymphocyte area was defined and viable cells were identified by the lack of fsv660 staining. from the viable population, single cells were defined […]

PMCID: 5179518
PMID: 28066414
DOI: 10.3389/fimmu.2016.00603

[…] bd biosciences) containing both positive and negative populations., flow cytometry data analysis was performed using the r programming language for statistical computing including the flowcore (), flowstats () r packages, or with the flowjo software (tree star). gating strategy involved the following sequential steps: gating on lymphocytes based on forward and side scatter, doublet-exclusion […]

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

[…] 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: 4965579
PMID: 27226629
DOI: 10.1074/jbc.M116.734020

[…] data were log2 transformed and an nlme mixed model used to test significance. for apoptosis assays, raw flow cytometry apoptosis data were analyzed by a custom script using r and the flowcore and flowstats bioconductor packages () and significance determined by anova (, ). for gene expression, cyclin-b1 level and mitotic index data, an anova was used to test for differences between genotypes, […]

PMCID: 4463798
PMID: 26085786
DOI: 10.4137/CIN.S16346

[…] the reflow system used for interacting with fcs files: flowio, for reading and writing fcs files; flowutils, containing utility functions for transforming and compensating flow cytometry data; and flowstats, which contains the statistical functions used for clustering multi-dimensional flow cytometry data. these independent flow cytometry libraries are based on previous work in our lab.,–, […]


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