Package: maPredictDSC
Version: 1.10.0
Date: 2013-6-27
Title: Phenotype prediction using microarray data: approach of the best
overall team in the IMPROVER Diagnostic Signature Challenge
Author: Adi Laurentiu Tarca <atarca@med.wayne.edu>
Depends: R (>= 2.15.0), MASS, affy, limma, gcrma, ROC, class, e1071, caret, hgu133plus2.db, ROCR, AnnotationDbi, LungCancerACvsSCCGEO
Suggests: parallel
Maintainer: Adi Laurentiu Tarca <atarca@med.wayne.edu>
Description: This package implements the classification pipeline of the best overall team (Team221) in the IMPROVER Diagnostic Signature Challenge. Additional functionality is added to compare 27 combinations of data preprocessing, feature selection and classifier types.
License: GPL-2
URL: http://bioinformaticsprb.med.wayne.edu/maPredictDSC
biocViews: Microarray, Classification
Collate: aggregateDSC.R perfDSC.R predictDSC.R maPredictDSC.R
Imports:
LazyLoad: yes
Packaged: 2016-05-04 05:01:21 UTC; biocbuild
NeedsCompilation: no
Package: simpleaffy
Title: Very simple high level analysis of Affymetrix data
Version: 2.48.0
Author: Crispin J Miller
Description: Provides high level functions for reading Affy .CEL files,
phenotypic data, and then computing simple things with it, such
as t-tests, fold changes and the like. Makes heavy use of the
affy library. Also has some basic scatter plot functions and
mechanisms for generating high resolution journal figures...
Maintainer: Crispin Miller <cmiller@picr.man.ac.uk>
Depends: R (>= 2.0.0), methods, utils, grDevices, graphics, stats, BiocGenerics (>= 0.1.12), Biobase, affy (>= 1.33.6), genefilter, gcrma
Imports: methods, utils, grDevices, graphics, stats, BiocGenerics, Biobase, affy, genefilter, gcrma
License: GPL (>= 2)
URL: http://www.bioconductor.org
http://bioinformatics.picr.man.ac.uk/simpleaffy/
LazyLoad: yes
biocViews: Microarray, OneChannel, QualityControl, Preprocessing,
Transcription, DataImport, DifferentialExpression, Annotation,
ReportWriting, Visualization
NeedsCompilation: yes
Packaged: 2016-05-04 02:39:53 UTC; biocbuild
Package: webbioc
Version: 1.44.0
Date: 2009-02-05
Title: Bioconductor Web Interface
Author: Colin A. Smith <colin@colinsmith.org>
Maintainer: Colin A. Smith <colin@colinsmith.org>
Depends: R (>= 1.8.0), Biobase, affy, multtest, annaffy, vsn, gcrma, qvalue
Imports: multtest, qvalue, stats, utils, BiocInstaller
SystemRequirements: Unix, Perl (>= 5.6.0), Netpbm
Description: An integrated web interface for doing microarray analysis
using several of the Bioconductor packages. It is intended to
be deployed as a centralized bioinformatics resource for use
by many users. (Currently only Affymetrix oligonucleotide
analysis is supported.)
License: GPL (>= 2)
URL: http://www.bioconductor.org/
LazyLoad: yes
biocViews: Infrastructure, Microarray, OneChannel,
DifferentialExpression
NeedsCompilation: no
Packaged: 2016-05-04 02:39:29 UTC; biocbuild
Package: affyILM
Type: Package
Title: Linear Model of background subtraction and the Langmuir isotherm
Version: 1.24.0
Date: 2010-03-17
Author: K. Myriam Kroll, Fabrice Berger, Gerard Barkema, Enrico Carlon
Maintainer: Myriam Kroll and Fabrice Berger <fabrice.berger@gmail.com>
Depends: R (>= 2.10.0), methods, gcrma
Imports: affxparser (>= 1.16.0), affy, graphics, methods, Biobase
Suggests: AffymetrixDataTestFiles
Description: affyILM is a preprocessing tool which estimates gene expression levels for Affymetrix Gene Chips. Input from physical chemistry is employed to first background subtract intensities before calculating concentrations on behalf of the Langmuir model.
biocViews: Microarray, OneChannel, Preprocessing
License: GPL version 3
NeedsCompilation: no
Packaged: 2016-05-04 03:38:16 UTC; biocbuild
Package: affyPLM
Version: 1.48.0
Title: Methods for fitting probe-level models
Author: Ben Bolstad <bmb@bmbolstad.com>
Maintainer: Ben Bolstad <bmb@bmbolstad.com>
Depends: R (>= 2.6.0), BiocGenerics (>= 0.3.2), affy (>= 1.11.0), Biobase (>= 2.17.8), gcrma, stats, preprocessCore (>= 1.5.1)
Imports: BiocGenerics, zlibbioc, graphics, grDevices, methods
Suggests: affydata, MASS
LinkingTo: preprocessCore
Description: A package that extends and improves the functionality of
the base affy package. Routines that make heavy use of
compiled code for speed. Central focus is on implementation of
methods for fitting probe-level models and tools using these
models. PLM based quality assessment tools.
License: GPL (>= 2)
URL: https://github.com/bmbolstad/affyPLM
biocViews: Microarray, OneChannel, Preprocessing, QualityControl
LazyLoad: yes
NeedsCompilation: yes
Packaged: 2016-05-04 02:40:57 UTC; biocbuild
providing 
.