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Topic: Spatial or MicroarrayData or SingleCell

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Release: Release 3.12 (2020)

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281 packages on Bioconductor tagged Spatial or MicroarrayData or SingleCell, most distinct IPs first

Spatial, MicroarrayData and SingleCell in Topics

PackageMaintainerCategoryLatest versionDistinct IPs a monthNeeds
edgeR
Empirical Analysis of Digital Gene Expression Data in RYunshun Chen		Yunshun Chensoftware19 Oct 202632,39210
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
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
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
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
scDblFinder
scDblFinderPierre-Luc Germain		Pierre-Luc Germainsoftware14 Oct 20266,116121
batchelor
Single-Cell Batch Correction MethodsAaron Lun		Aaron Lunsoftware28 Apr 20265,72056
slingshot
Tools for ordering single-cell sequencingKelly Street		Kelly Streetsoftware28 Apr 20264,68438
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
zellkonverter
Conversion Between scRNA-seq ObjectsLuke Zappia		Luke Zappiasoftware29 Apr 20264,27841
DropletUtils
Utilities for Handling Single-Cell Droplet DataJonathan Griffiths		Jonathan Griffithssoftware27 Sep 20264,10759
MAST
Model-based Analysis of Single Cell TranscriptomicsAndrew McDavid		Andrew McDavidsoftware28 Apr 20263,74056
Rsubread
Mapping, quantification and variant analysis of sequencing dataWei Shi		Wei Shisoftware28 Apr 20262,9518
infercnv
Infer Copy Number Variation from Single-Cell RNA-Seq DataChristophe Georgescu		Christophe Georgescusoftware28 Apr 20262,709194
OmnipathR
OmniPath web service client and moreDenes Turei		Denes Tureisoftware30 Apr 20262,68589
tximeta
Transcript Quantification Import with Automatic MetadataMichael Love		Michael Lovesoftware26 Oct 20262,485108
tradeSeq
trajectory-based differential expression analysis for sequencing dataHector Roux de Bezieux		Hector Roux de Bezieuxsoftware28 Apr 20262,46073
celda
CEllular Latent Dirichlet AllocationJoshua Campbell		Joshua Campbellsoftware28 Apr 20262,337127
chromVAR
Chromatin Variation Across RegionsAlicia Schep		Alicia Schepsoftware11 May 20262,255134
Nebulosa
Single-Cell Data Visualisation Using Kernel Gene-Weighted Density EstimationJose Alquicira-Hernandez		Jose Alquicira-Hernandezsoftware28 Apr 20262,00083
muscat
Multi-sample multi-group scRNA-seq data analysis toolsHelena L. Crowell		Helena L. Crowellsoftware28 Apr 20261,936162
PCAtools
PCAtools: Everything Principal Components AnalysisJared Andrews		Jared Andrewssoftware28 Apr 20261,88965
dittoSeq
User Friendly Single-Cell and Bulk RNA Sequencing VisualizationDaniel Bunis		Daniel Bunissoftware28 Apr 20261,83155
scRepertoire
A toolkit for single-cell immune receptor profilingNick Borcherding		Nick Borcherdingsoftware28 Apr 20261,571115
zinbwave
Zero-Inflated Negative Binomial Model for RNA-Seq DataDavide Risso		Davide Rissosoftware28 Apr 20261,56974