R Observatory
Menu
Search

Packages

Downloads

Distinct IPs a month

Licence

Licence family offered

Topic: AnnotationData or ExperimentHub or RNASeq

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 3.9 (2019)

In the current release or not

Bioconductor release

Clear all

1,172 packages on Bioconductor tagged AnnotationData or ExperimentHub or RNASeq, most distinct IPs first

AnnotationData, ExperimentHub and RNASeq in Topics

PackageMaintainerCategoryLatest versionDistinct IPs a monthNeeds
limma
Linear Models for Microarray and Omics DataGordon Smyth		Gordon Smythsoftware10 Aug 202645,9656
GenomeInfoDbData
Species and taxonomy ID look up tables used by GenomeInfoDbBioconductor Maintainer		Bioconductor Maintainerannotationno date on record36,7970
GO.db
A set of annotation maps describing the entire Gene OntologyBioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record33,69442
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
org.Hs.eg.db
Genome wide annotation for HumanBioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record29,81342
GenomicAlignments
Representation and manipulation of short genomic alignmentsHervé Pagès		Hervé Pagèssoftware28 Apr 202627,00641
HDF5Array
HDF5 datasets as array-like objects in RHervé Pagès		Hervé Pagèssoftware28 Apr 202620,53728
org.Mm.eg.db
Genome wide annotation for MouseBioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record13,52042
GSVA
Gene Set Variation Analysis for Microarray and RNA-Seq DataRobert Castelo		Robert Castelosoftware25 Oct 202612,75897
scater
Single-Cell Analysis Toolkit for Gene Expression Data in RAlan O'Callaghan		Alan O'Callaghansoftware2 Jul 202612,63578
ensembldb
Utilities to create and use Ensembl-based annotation databasesJohannes Rainer		Johannes Rainersoftware25 May 202611,00080
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
apeglm
Approximate posterior estimation for GLM coefficientsAnqi Zhu		Anqi Zhusoftware28 Apr 20267,71636
EnhancedVolcano
Publication-ready volcano plots with enhanced colouring and labelingJared Andrews		Jared Andrewssoftware28 Apr 20267,62025
reactome.db
A set of annotation maps for reactomeWillem Ligtenberg		Willem Ligtenbergannotationno date on record7,57842
TxDb.Hsapiens.UCSC.hg19.knownGene
Annotation package for TxDb object(s)Bioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record6,25875
tximport
Import and summarize transcript-level estimates for transcript- and gene-level analysisMichael Love		Michael Lovesoftware28 Apr 20265,8043
batchelor
Single-Cell Batch Correction MethodsAaron Lun		Aaron Lunsoftware28 Apr 20265,72056
pathview
a tool set for pathway based data integration and visualizationWeijun Luo		Weijun Luosoftware28 Apr 20265,70650
HDO.db
A set of annotation maps describing the entire Human Disease OntologyErqiang Hu		Erqiang Huannotationno date on record5,27742
BSgenome.Hsapiens.UCSC.hg38
Full genomic sequences for Homo sapiens (UCSC genome hg38)Bioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record4,98960
slingshot
Tools for ordering single-cell sequencingKelly Street		Kelly Streetsoftware28 Apr 20264,68438
monocle
Clustering, differential expression, and trajectory analysis for single- cell RNA-SeqCole Trapnell		Cole Trapnellsoftware28 Apr 20264,48574
hgu133plus2.db
Affymetrix Affymetrix HG-U133_Plus_2 Array annotation data (chip hgu133plus2)Bioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record4,22743
DropletUtils
Utilities for Handling Single-Cell Droplet DataJonathan Griffiths		Jonathan Griffithssoftware27 Sep 20264,10759
TxDb.Hsapiens.UCSC.hg38.knownGene
Annotation package for TxDb object(s)Bioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record3,91975
MAST
Model-based Analysis of Single Cell TranscriptomicsAndrew McDavid		Andrew McDavidsoftware28 Apr 20263,74056
EnsDb.Hsapiens.v86
Ensembl based annotation packageJohannes Rainer		Johannes Rainerannotationno date on record3,38981