R Observatory
Menu
Search

Packages

Downloads

Distinct IPs a month

Licence

Licence family offered

Topic: Normalization or ChipDb or SystemsBiology

biocViews term

Category

People
AI tools

AI coding tool

AI tool found as

Model named in commits

Code

Source repository on GitHub known

Dates
First letter

First letter

Release: Release 3.7 (2018)

In the current release or not

Bioconductor release

Clear all

310 packages on Bioconductor tagged Normalization or ChipDb or SystemsBiology, most distinct IPs first

Normalization, ChipDb and SystemsBiology 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
scater
Single-Cell Analysis Toolkit for Gene Expression Data in RAlan O'Callaghan		Alan O'Callaghansoftware2 Jul 202612,63578
sva
Surrogate Variable AnalysisJeffrey T. Leek		Jeffrey T. Leeksoftware5 May 202610,80468
scran
Methods for Single-Cell RNA-Seq Data AnalysisAaron Lun		Aaron Lunsoftware28 Apr 202610,13962
pathview
a tool set for pathway based data integration and visualizationWeijun Luo		Weijun Luosoftware28 Apr 20265,70650
AUCell
AUCell: Analysis of 'gene set' activity in single-cell RNA-seq data (e.g. identify cells with specific gene signatures)Gert Hulselmans		Gert Hulselmanssoftware29 Apr 20264,610115
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
topGO
Enrichment Analysis for Gene OntologyFederico Marini		Federico Marinisoftware28 Apr 20263,22848
variancePartition
Quantify and interpret drivers of variation in multilevel gene expression experimentsGabriel E. Hoffman		Gabriel E. Hoffmansoftware28 Apr 20263,21199
microbiome
Microbiome AnalyticsLeo Lahti		Leo Lahtisoftware28 Apr 20263,10980
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
GENIE3
GEne Network Inference with Ensemble of treesVan Anh Huynh-Thu		Van Anh Huynh-Thusoftware28 Apr 20262,25326
viper
Virtual Inference of Protein-activity by Enriched Regulon analysisMariano J Alvarez		Mariano J Alvarezsoftware28 Apr 20262,06087
progeny
Pathway RespOnsive GENes for activity inference from gene expressionAurélien Dugourd		Aurélien Dugourdsoftware28 Apr 20262,01258
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
gage
Generally Applicable Gene-set Enrichment for Pathway AnalysisWeijun Luo		Weijun Luosoftware28 Apr 20261,92944
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
csaw
ChIP-Seq Analysis with WindowsAaron Lun		Aaron Lunsoftware28 Apr 20261,53646
IsoformSwitchAnalyzeR
Identify, Annotate and Visualize Isoform Switches with Functional Consequences from both short- and long-read RNA-seq dataKristoffer Vitting-Seerup		Kristoffer Vitting-Seerupsoftware28 Apr 20261,421151
Cardinal
A mass spectrometry imaging toolbox for statistical analysisKylie Ariel Bemis		Kylie Ariel Bemissoftware28 Apr 20261,40531
hpar
Human Protein Atlas in RLaurent Gatto		Laurent Gattosoftware28 Apr 20261,38264
RedeR
Interactive visualization and manipulation of nested networksMauro Castro		Mauro Castrosoftware14 Jul 20261,31723
hugene10sttranscriptcluster.db
Affymetrix hugene10 annotation data (chip hugene10sttranscriptcluster)Biocore Package Maintainer		Biocore Package Maintainerannotationno date on record1,30243