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Topic: SingleCell or BiomedicalInformatics

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Release: Release 3.6 (2017)

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68 packages on Bioconductor tagged SingleCell or BiomedicalInformatics, most distinct IPs first

SingleCell and BiomedicalInformatics 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
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
scater
Single-Cell Analysis Toolkit for Gene Expression Data in RAlan O'Callaghan		Alan O'Callaghansoftware2 Jul 202612,63578
scran
Methods for Single-Cell RNA-Seq Data AnalysisAaron Lun		Aaron Lunsoftware28 Apr 202610,13962
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
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
DiffBind
Differential Binding Analysis of ChIP-Seq Peak DataRory Stark		Rory Starksoftware21 Jul 20262,490141
chromVAR
Chromatin Variation Across RegionsAlicia Schep		Alicia Schepsoftware11 May 20262,255134
ChemmineR
Cheminformatics Toolkit for RThomas Girke		Thomas Girkesoftware28 Apr 20261,85465
zinbwave
Zero-Inflated Negative Binomial Model for RNA-Seq DataDavide Risso		Davide Rissosoftware28 Apr 20261,56974
splatter
Simple Simulation of Single-cell RNA Sequencing DataLuke Zappia		Luke Zappiasoftware28 Apr 20261,55361
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
SC3
Single-Cell Consensus ClusteringVladimir Kiselev		Vladimir Kiselevsoftware28 Apr 20261,36892
flowAI
Automatic and interactive quality control for flow cytometry dataGianni Monaco		Gianni Monacosoftware28 Apr 20261,30268
scmap
A tool for unsupervised projection of single cell RNA-seq dataVladimir Kiselev		Vladimir Kiselevsoftware28 Apr 20261,27062
CATALYST
Cytometry dATa anALYSis ToolsHelena L. Crowell		Helena L. Crowellsoftware28 Apr 20261,265176
BASiCS
Bayesian Analysis of Single-Cell Sequencing dataCatalina Vallejos		Catalina Vallejossoftware29 Apr 20261,206129
rexposome
Exposome exploration and outcome data analysisXavier Escribà Montagut		Xavier Escribà Montagutsoftware11 May 20261,196174
gCrisprTools
Suite of Functions for Pooled Crispr Screen QC and AnalysisRussell Bainer		Russell Bainersoftware28 Apr 20261,17481
clusterExperiment
Compare Clusterings for Single-Cell SequencingElizabeth Purdom		Elizabeth Purdomsoftware28 Apr 20261,150147
Linnorm
Linear model and normality based normalization and transformation method (Linnorm)Shun Hang Yip		Shun Hang Yipsoftware28 Apr 20261,08862
fmcsR
Mismatch Tolerant Maximum Common Substructure SearchingThomas Girke		Thomas Girkesoftware28 Apr 20261,08768
psichomics
Graphical Interface for Alternative Splicing Quantification, Analysis and VisualisationNuno Saraiva-Agostinho		Nuno Saraiva-Agostinhosoftware31 May 20261,070205
ChemmineOB
R interface to a subset of OpenBabel functionalitiesThomas Girke		Thomas Girkesoftware28 Apr 20261,0478
TRONCO
TRONCO, an R package for TRanslational ONCOlogyLuca De Sano		Luca De Sanosoftware28 Apr 20261,02547
SIMLR
Single-cell Interpretation via Multi-kernel LeaRning (SIMLR)Luca De Sano		Luca De Sanosoftware28 Apr 20261,01014
Rcpi
Molecular Informatics Toolkit for Compound-Protein Interaction in Drug DiscoveryNan Xiao		Nan Xiaosoftware28 Apr 202698957