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Last data update: 2014.03.03

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Results 1 - 9 of 9 found.
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plateCore : Statistical tools and data structures for plate-based flow cytometry

Package: plateCore
Version: 1.30.0
Date: 2010-04-12
Title: Statistical tools and data structures for plate-based flow
cytometry
Author: Errol Strain, Florian Hahne, and Perry Haaland
Maintainer: Errol Strain <estrain@gmail.com>
Depends: R (>= 2.10), flowCore, flowViz, lattice, latticeExtra
Imports: Biobase, flowCore, graphics, grDevices, lattice, MASS,
methods, robustbase, stats, utils, flowStats
Suggests: gplots
Description: Provides basic S4 data structures and routines for
analyzing plate based flow cytometry data.
License: Artistic-2.0
URL: http://www.bioconductor.org
biocViews: FlowCytometry, Infrastructure, CellBasedAssays
NeedsCompilation: no
Packaged: 2016-05-04 03:17:38 UTC; biocbuild

● Data Source: BioConductor
● BiocViews: CellBasedAssays, FlowCytometry, Infrastructure
● 10 images, 23 functions, 2 datasets
● Reverse Depends: 0

QUALIFIER : Quality Control of Gated Flow Cytometry Experiments

Package: QUALIFIER
Type: Package
Title: Quality Control of Gated Flow Cytometry Experiments
Version: 1.16.1
Author: Mike Jiang,Greg Finak,Raphael Gottardo
Maintainer: Mike Jiang <wjiang2@fhcrc.org>
Depends: R (>= 2.14.0), flowCore, flowViz, ncdfFlow, flowWorkspace,
data.table, reshape
Imports:
MASS,hwriter,lattice,stats4,flowCore,flowViz,methods,flowWorkspace,latticeExtra,grDevices,tools,
Biobase,XML,grid
Description: Provides quality control and quality assessment tools for gated
flow cytometry data.
License: Artistic-2.0
biocViews: Infrastructure, FlowCytometry, CellBasedAssays
Suggests: RSVGTipsDevice, knitr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-05-16 03:15:56 UTC; biocbuild

● Data Source: BioConductor
● BiocViews: CellBasedAssays, FlowCytometry, Infrastructure
● 0 images, 13 functions, 0 datasets
● Reverse Depends: 0

ncdfFlow : ncdfFlow: A package that provides HDF5 based storage for flow cytometry data.

Package: ncdfFlow
Title: ncdfFlow: A package that provides HDF5 based storage for flow
cytometry data.
Version: 2.18.0
Author: Mike Jiang,Greg Finak,N. Gopalakrishnan
Description: Provides HDF5 storage based methods and functions for
manipulation of flow cytometry data.
Maintainer: Mike Jiang <wjiang2@fhcrc.org>
Depends: R (>= 2.14.0), flowCore (>= 1.37.15), flowViz, RcppArmadillo,
methods, BH
Imports: Biobase, BiocGenerics, flowCore, flowViz, zlibbioc
Suggests: testthat, parallel
License: Artistic-2.0
SystemRequirements: hdf5 (>= 1.8.0)
biocViews: FlowCytometry
Packaged: 2016-05-04 04:18:33 UTC; biocbuild
LinkingTo: Rcpp,RcppArmadillo,BH
NeedsCompilation: yes

● Data Source: BioConductor
● BiocViews: FlowCytometry
● 0 images, 22 functions, 0 datasets
● Reverse Depends: 3

flowClust : Clustering for Flow Cytometry

Package: flowClust
Type: Package
Title: Clustering for Flow Cytometry
Version: 3.10.1
Author: Raphael Gottardo <raph@stat.ubc.ca>, Kenneth Lo <c.lo@stat.ubc.ca>, Greg Finak <gfinak@fhcrc.org>
Maintainer: Greg Finak <gfinak@fhcrc.org>, Mike Jiang <wjiang2@fhcrc.org>
Depends: R (>= 2.5.0), methods, Biobase, graph, RBGL, ellipse, flowViz,
mnormt, corpcor, flowCore, clue
Imports: BiocGenerics, MCMCpack
Suggests: parallel
Enhances:
Description: Robust model-based clustering using a t-mixture model with
Box-Cox transformation. Note: users should have GSL installed.
Windows users: 'consult the README file available in the inst
directory of the source distribution for necessary
configuration instructions'.
Collate: SetClasses.R SetMethods.R plot.R flowClust.R SimulateMixture.R
mkPriors.R peakMatch.R
License: Artistic-2.0
Packaged: 2016-06-24 01:57:11 UTC; biocbuild
biocViews: Clustering, Visualization, FlowCytometry
SystemRequirements: GNU make
NeedsCompilation: yes

● Data Source: BioConductor
● BiocViews: Clustering, FlowCytometry, Visualization
● 14 images, 27 functions, 1 datasets
● Reverse Depends: 3

flowFP : Fingerprinting for Flow Cytometry

Package: flowFP
Type: Package
Title: Fingerprinting for Flow Cytometry
Version: 1.30.0
Author: Herb Holyst <holyst@mail.med.upenn.edu>, Wade Rogers
<rogersw@mail.med.upenn.edu>
Date: 2009
Maintainer: Herb Holyst <holyst@mail.med.upenn.edu>
Depends: R (>= 2.10), flowCore, flowViz
Imports: Biobase, BiocGenerics (>= 0.1.6), graphics, grDevices,
methods, stats, stats4
Suggests: RUnit
Description: Fingerprint generation of flow cytometry data, used to
facilitate the application of machine learning and datamining
tools for flow cytometry.
Collate: AllClasses.R flowFP-utils.R flowFPModel.R flowFP.R
flowFPPlex.R plot-model.R plot-utils.R plot-fancy.R
plot-plate.R plot-qc.R plot-tangle.R plot-stack.R plot-grid.R
AllGenerics.R
LazyLoad: TRUE
License: Artistic-2.0
Packaged: 2016-05-04 03:15:01 UTC; biocbuild
biocViews: FlowCytometry, CellBasedAssays, Clustering, Visualization
NeedsCompilation: yes

● Data Source: BioConductor
● BiocViews: CellBasedAssays, Clustering, FlowCytometry, Visualization
● 3 images, 27 functions, 3 datasets
● Reverse Depends: 1

flowQ : Quality control for flow cytometry

Package: flowQ
Type: Package
Title: Quality control for flow cytometry
Version: 1.32.0
Author: R. Gentleman, F. Hahne, J. Kettman, N. Le Meur, N. Gopalakrishnan
Maintainer: Mike Jiang <wjiang2@fhcrc.org>
Description: Provides quality control and quality assessment tools for flow
cytometry data.
Depends: R (>= 2.10.0), methods, BiocGenerics, outliers, lattice,
flowViz, mvoutlier, bioDist, parody, RColorBrewer, latticeExtra
Imports: methods, BiocGenerics, geneplotter, flowCore, flowViz, IRanges
Suggests: flowStats
SystemRequirements: ImageMagick
License: Artistic-2.0
biocViews: Infrastructure, FlowCytometry, CellBasedAssays
NeedsCompilation: no
Packaged: 2016-05-04 02:59:15 UTC; biocbuild

● Data Source: BioConductor
● BiocViews: CellBasedAssays, FlowCytometry, Infrastructure
● 0 images, 35 functions, 1 datasets
● Reverse Depends: 0

flowTrans : Parameter Optimization for Flow Cytometry Data Transformation

Package: flowTrans
Type: Package
Title: Parameter Optimization for Flow Cytometry Data Transformation
Version: 1.24.0
Date: 2010-04-21
Author: Greg Finak <gfinak@fredhutch.org>, Juan Manuel-Perez
<jperez@ircm.qc.ca>, Raphael Gottardo
<rgottard@fredhutch.org>
Maintainer: Greg Finak <gfinak@fredhutch.org>
Description: Profile maximum likelihood estimation of parameters for
flow cytometry data transformations.
License: Artistic-2.0
LazyLoad: yes
Depends: R (>= 2.11.0), flowCore, flowViz, flowClust
Imports: flowCore, methods, flowViz, stats, flowClust
Collate: mclMultivArcSinh.R mclMultivBiexp.R mclMultivLinLog.R
mclMultivBoxCox.R arcsinhTransformWrapper.R
biexponentialTransformWrapper.R boxcoxTransform.R flowTrans.R
linLog.R setMethods.R
biocViews: FlowCytometry
NeedsCompilation: no
Packaged: 2016-05-04 03:37:13 UTC; biocbuild

● Data Source: BioConductor
● BiocViews: FlowCytometry
● 2 images, 7 functions, 0 datasets
● Reverse Depends: 0

flowVS : Variance stabilization in flow cytometry (and microarrays)

Package: flowVS
Type: Package
Title: Variance stabilization in flow cytometry (and microarrays)
Version: 1.4.2
Date: 2015-04-07
Author: Ariful Azad
Maintainer: Ariful Azad <azadcse@gmail.com>
Description: Per-channel variance stabilization from a collection of
flow cytometry samples by Bertlett test for homogeneity of
variances. The approach is applicable to microarrays data as
well.
License: Artistic-2.0
LazyLoad: yes
VignetteBuilder: knitr
Depends: R (>= 3.2), methods, flowCore, flowViz, flowStats
Suggests: knitr, vsn,
biocViews: FlowCytometry, CellBasedAssays, Microarray
NeedsCompilation: no
Packaged: 2016-05-16 05:28:54 UTC; biocbuild

● Data Source: BioConductor
● BiocViews: CellBasedAssays, FlowCytometry, Microarray
● 13 images, 6 functions, 1 datasets
● Reverse Depends: 0

flowWorkspace : Infrastructure for representing and interacting with the gated cytometry

Package: flowWorkspace
Type: Package
Title: Infrastructure for representing and interacting with the gated
cytometry
Version: 3.18.8
Date: 2011-06-10
Author: Greg Finak, Mike Jiang
Maintainer: Greg Finak <gfinak@fhcrc.org>,Mike Jiang <wjiang2@fhcrc.org>
Description: This package is designed to facilitate comparison of automated
gating methods against manual gating done in flowJo. This package allows
you to import basic flowJo workspaces into BioConductor and replicate the
gating from flowJo using the flowCore functionality. Gating hierarchies,
groups of samples, compensation, and transformation are performed so that
the output matches the flowJo analysis.
License: Artistic-2.0
LazyLoad: yes
Imports: Biobase, BiocGenerics, graph, graphics, lattice, methods,
stats, stats4, utils, RBGL, XML, tools, gridExtra, Rgraphviz,
data.table, dplyr, latticeExtra, Rcpp, RColorBrewer, stringr,
scales
Collate: 'AllGenerics.R' 'AllClasses.R' 'GatingHierarchy_Methods.R'
'GatingSet_Methods.R' 'GatingSetList_Methods.R' 'RcppExports.R'
'filterObject_Methods.R' 'add_Methods.R'
'flowJoWorkspace_Methods.R' 'flow_trans.R' 'merge_GatingSet.R'
'setGate_Methods.R' 'utils.R' 'zzz.R'
Depends: R (>= 2.16.0), flowCore (>= 1.37.8), flowViz (>=
1.29.27), ncdfFlow (>= 2.17.4), gridExtra
biocViews: FlowCytometry, DataImport, Preprocessing, DataRepresentation
Suggests: testthat, flowWorkspaceData, RSVGTipsDevice, knitr, ggcyto
LinkingTo: Rcpp, BH(>= 1.60.0-1)
VignetteBuilder: knitr
SystemRequirements: xml2, GNU make
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2016-06-22 02:57:25 UTC; biocbuild

● Data Source: BioConductor
● BiocViews: DataImport, DataRepresentation, FlowCytometry, Preprocessing
● 3 images, 70 functions, 0 datasets
● Reverse Depends: 5