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Topic: SingleCell or AffymetrixChip or ImmunoOncology

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Release: Release 3.22 (2025)

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1,003 packages on Bioconductor tagged SingleCell or AffymetrixChip or ImmunoOncology, most distinct IPs first

SingleCell, AffymetrixChip and ImmunoOncology 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
GenomicAlignments
Representation and manipulation of short genomic alignmentsHervé Pagès		Hervé Pagèssoftware28 Apr 202627,00641
SingleCellExperiment
S4 Classes for Single Cell DataDavide Risso		Davide Rissosoftware28 Apr 202624,48325
HDF5Array
HDF5 datasets as array-like objects in RHervé Pagès		Hervé Pagèssoftware28 Apr 202620,53728
assorthead
Assorted Header-Only C++ LibrariesAaron Lun		Aaron Lunsoftware8 Oct 202619,4360
scuttle
Legacy Utilities for Single-Cell RNA-Seq AnalysisAaron Lun		Aaron Lunsoftware28 Apr 202614,23639
scater
Single-Cell Analysis Toolkit for Gene Expression Data in RAlan O'Callaghan		Alan O'Callaghansoftware2 Jul 202612,63578
bluster
Clustering Algorithms for BioconductorAaron Lun		Aaron Lunsoftware28 Apr 202610,90344
sva
Surrogate Variable AnalysisJeffrey T. Leek		Jeffrey T. Leeksoftware5 May 202610,80468
SpatialExperiment
S4 Class for Spatially Resolved -omics DataDario Righelli		Dario Righellisoftware28 Apr 202610,71864
scran
Methods for Single-Cell RNA-Seq Data AnalysisAaron Lun		Aaron Lunsoftware28 Apr 202610,13962
phyloseq
Handling and analysis of high-throughput microbiome census dataPaul J. McMurdie		Paul J. McMurdiesoftware28 Apr 20268,37966
biomformat
An interface package for the BIOM file formatPaul J. McMurdie		Paul J. McMurdiesoftware28 Apr 20267,8379
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
glmGamPoi
Fit a Gamma-Poisson Generalized Linear ModelConstantin Ahlmann-Eltze		Constantin Ahlmann-Eltzesoftware28 Apr 20267,00046
SingleR
Reference-Based Single-Cell RNA-Seq AnnotationAaron Lun		Aaron Lunsoftware10 Sep 20266,76128
DirichletMultinomial
Dirichlet-Multinomial Mixture Model Machine Learning for Microbiome DataMartin Morgan		Martin Morgansoftware28 Sep 20266,4909
scDblFinder
scDblFinderPierre-Luc Germain		Pierre-Luc Germainsoftware14 Oct 20266,116121
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
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
mixOmics
Omics Data Integration ProjectDerek Lei		Derek Leisoftware28 Apr 20265,37083
DECIPHER
Tools for curating, analyzing, and manipulating biological sequencesErik Wright		Erik Wrightsoftware30 Jul 20264,88216
slingshot
Tools for ordering single-cell sequencingKelly Street		Kelly Streetsoftware28 Apr 20264,68438
flowCore
flowCore: Basic structures for flow cytometry dataMike Jiang		Mike Jiangsoftware28 Apr 20264,65121
TrajectoryUtils
Single-Cell Trajectory Analysis UtilitiesAaron Lun		Aaron Lunsoftware28 Apr 20264,61135