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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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No version available

Documentation


flowStats citations

 (5)
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Luciferase Expression Allows Bioluminescence Imaging But Imposes Limitations on the Orthotopic Mouse (4T1) Model of Breast Cancer

2017
Sci Rep
PMCID: 5552689
PMID: 28798322
DOI: 10.1038/s41598-017-07851-z
call_split See protocol

[…] e 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 by the […]

library_books

TGF β Affects the Differentiation of Human GM CSF+ CD4+ T Cells in an Activation and Sodium Dependent Manner

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

[…] ads, 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 ba […]

library_books

Immunophenotype Discovery, Hierarchical Organization, and Template Based Classification of Flow Cytometry Samples

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

[…] zing 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 ().The aforem […]

library_books

The Coronary Artery Disease associated Coding Variant in Zinc Finger C3HC type Containing 1 (ZC3HC1) Affects Cell Cycle Regulation*

2016
PMCID: 4965579
PMID: 27226629
DOI: 10.1074/jbc.M116.734020

[…] say 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, […]

call_split

Managing Multi center Flow Cytometry Data for Immune Monitoring

2015
Cancer Inform
PMCID: 4463798
PMID: 26085786
DOI: 10.4137/CIN.S16346
call_split See protocol

[…] of 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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