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Topic: Normalization or ChipDb or MassSpectrometry

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Release: Release 3.2 (2015)

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264 packages on Bioconductor tagged Normalization or ChipDb or MassSpectrometry, most distinct IPs first

Normalization, ChipDb and MassSpectrometry in Topics

PackageMaintainerCategoryLatest versionDistinct IPs a monthNeeds
limma
Linear Models for Microarray and Omics DataGordon Smyth		Gordon Smythsoftware10 Aug 202645,9656
edgeR
Empirical Analysis of Digital Gene Expression Data in RYunshun Chen		Yunshun Chensoftware19 Oct 202632,39210
DESeq2
Differential gene expression analysis based on the negative binomial distributionMichael Love		Michael Lovesoftware28 Apr 202632,07254
ProtGenerics
Generic infrastructure for Bioconductor mass spectrometry packagesLaurent Gatto		Laurent Gattosoftware28 Apr 202613,0181
sva
Surrogate Variable AnalysisJeffrey T. Leek		Jeffrey T. Leeksoftware5 May 202610,80468
mzR
parser for netCDF, mzXML and mzML and mzIdentML files (mass spectrometry data)Steffen Neumann		Steffen Neumannsoftware28 Apr 20265,63915
MSnbase
Base Functions and Classes for Mass Spectrometry and ProteomicsLaurent Gatto		Laurent Gattosoftware9 Aug 20265,521134
mzID
An mzIdentML parser for RLaurent Gatto		Laurent Gattosoftware28 Apr 20264,53211
hgu133plus2.db
Affymetrix Affymetrix HG-U133_Plus_2 Array annotation data (chip hgu133plus2)Bioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record4,22743
minfi
Analyze Illumina Infinium DNA methylation arraysKasper Daniel Hansen		Kasper Daniel Hansensoftware28 Apr 20264,041143
xcms
LC-MS and GC-MS Data AnalysisSteffen Neumann		Steffen Neumannsoftware7 Jul 20263,537143
variancePartition
Quantify and interpret drivers of variation in multilevel gene expression experimentsGabriel E. Hoffman		Gabriel E. Hoffmansoftware28 Apr 20263,21199
MassSpecWavelet
Peak Detection for Mass Spectrometry data using wavelet-based algorithmsSergio Oller Moreno		Sergio Oller Morenosoftware7 Jul 20263,0960
ropls
PCA, PLS(-DA) and OPLS(-DA) for multivariate analysis and feature selection of omics dataEtienne A. Thevenot		Etienne A. Thevenotsoftware28 Apr 20262,96997
metagenomeSeq
Statistical analysis for sparse high-throughput sequencingJoseph N. Paulson		Joseph N. Paulsonsoftware28 Apr 20262,92432
DiffBind
Differential Binding Analysis of ChIP-Seq Peak DataRory Stark		Rory Starksoftware21 Jul 20262,490141
hgu133a.db
Affymetrix Affymetrix HG-U133A Array annotation data (chip hgu133a)Bioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record1,99643
missMethyl
Analysing Illumina HumanMethylation BeadChip DataBelinda Phipson		Belinda Phipsonsoftware12 May 20261,987169
pRoloc
A unifying bioinformatics framework for spatial proteomicsLisa Breckels		Lisa Breckelssoftware28 Apr 20261,689230
ChAMP
Chip Analysis Methylation Pipeline for Illumina HumanMethylation450 and EPICYuan Tian		Yuan Tiansoftware28 Apr 20261,643266
hgu95av2.db
Affymetrix Affymetrix HG_U95Av2 Array annotation data (chip hgu95av2)Bioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record1,60543
MSstats
Protein Significance Analysis in DDA, SRM and DIA for Label-free or Label-based Proteomics ExperimentsMeena Choi		Meena Choisoftware28 Apr 20261,586100
CAMERA
Collection of annotation related methods for mass spectrometry dataSteffen Neumann		Steffen Neumannsoftware28 Apr 20261,548157
csaw
ChIP-Seq Analysis with WindowsAaron Lun		Aaron Lunsoftware28 Apr 20261,53646
Rdisop
Decomposition of Isotopic PatternsSteffen Neumann		Steffen Neumannsoftware28 Apr 20261,5083
Cardinal
A mass spectrometry imaging toolbox for statistical analysisKylie Ariel Bemis		Kylie Ariel Bemissoftware28 Apr 20261,40531
rpx
R Interface to the ProteomeXchange RepositoryLaurent Gatto		Laurent Gattosoftware29 Sep 20261,32946
rols
An R interface to the Ontology Lookup ServiceSehyun Oh		Sehyun Ohsoftware12 Oct 20261,30422
hugene10sttranscriptcluster.db
Affymetrix hugene10 annotation data (chip hugene10sttranscriptcluster)Biocore Package Maintainer		Biocore Package Maintainerannotationno date on record1,30243
ACME
Algorithms for Calculating Microarray Enrichment (ACME)Sean Davis		Sean Davissoftware28 Apr 20261,2787