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Topic: SingleCell or Coverage or Software

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Release: Release 3.20 (2024)

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2,488 packages on Bioconductor tagged SingleCell or Coverage or Software, most distinct IPs first

SingleCell, Coverage and Software in Topics

PackageMaintainerCategoryLatest versionDistinct IPs a monthNeeds
BiocVersion
Set the appropriate version of Bioconductor packagesBioconductor Package Maintainer		Bioconductor Package Maintainersoftware30 Oct 202578,5530
S4Vectors
Foundation of vector-like and list-like containers in BioconductorHervé Pagès		Hervé Pagèssoftware16 Sep 202674,7547
BiocGenerics
S4 generic functions used in BioconductorHervé Pagès		Hervé Pagèssoftware14 May 202674,5745
IRanges
Foundation of integer range manipulation in BioconductorHervé Pagès		Hervé Pagèssoftware28 Apr 202668,8178
Biobase
Biobase: Base functions for BioconductorBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202664,5556
XVector
Foundation of external vector representation and manipulation in BioconductorHervé Pagès		Hervé Pagèssoftware28 Apr 202663,83710
BiocParallel
Bioconductor facilities for parallel evaluationJiefei Wang		Jiefei Wangsoftware29 Apr 202659,78012
SparseArray
High-performance sparse data representation and manipulation in RHervé Pagès		Hervé Pagèssoftware22 Sep 202659,62919
Biostrings
Efficient manipulation of biological stringsHervé Pagès		Hervé Pagèssoftware2 Sep 202658,96214
DelayedArray
A unified framework for working transparently with on-disk and in-memory array-like datasetsHervé Pagès		Hervé Pagèssoftware26 May 202657,50020
GenomicRanges
Representation and manipulation of genomic intervalsHervé Pagès		Hervé Pagèssoftware28 Apr 202656,97410
S4Arrays
Foundation of array-like containers in BioconductorHervé Pagès		Hervé Pagèssoftware22 Sep 202653,67514
SummarizedExperiment
A container (S4 class) for matrix-like assaysHervé Pagès		Hervé Pagèssoftware28 Apr 202653,48424
MatrixGenerics
S4 Generic Summary Statistic Functions that Operate on Matrix-Like ObjectsPeter Hickey		Peter Hickeysoftware28 Apr 202652,7102
AnnotationDbi
Manipulation of SQLite-based annotations in BioconductorBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202647,94141
limma
Linear Models for Microarray and Omics DataGordon Smyth		Gordon Smythsoftware10 Aug 202645,9656
KEGGREST
Client-side REST access to the Kyoto Encyclopedia of Genes and Genomes (KEGG)Bioconductor Package Maintainer		Bioconductor Package Maintainersoftware18 Jun 202645,88624
GenomeInfoDb
Utilities for manipulating chromosome names, including modifying them to follow a particular naming styleHervé Pagès		Hervé Pagèssoftware28 Apr 202637,35620
ggtree
an R package for visualization of tree and annotation dataGuangchuang Yu		Guangchuang Yusoftware29 Oct 202634,37279
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
treeio
Base Classes and Functions for Phylogenetic Tree Input and OutputGuangchuang Yu		Guangchuang Yusoftware30 Apr 202631,96639
enrichplot
Visualization of Functional Enrichment ResultGuangchuang Yu		Guangchuang Yusoftware28 Sep 202630,370128
Rsamtools
Binary alignment (BAM), FASTA, variant call (BCF), and tabix file importBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202630,33728
clusterProfiler
A Universal Enrichment Tool for Interpreting Omics DataGuangchuang Yu		Guangchuang Yusoftware19 Oct 202629,661138
BiocFileCache
Manage Files Across SessionsLori Shepherd		Lori Shepherdsoftware28 Apr 202629,41641
DOSE
Disease Ontology Semantic and Enrichment analysisGuangchuang Yu		Guangchuang Yusoftware28 Apr 202628,87377
fgsea
Fast Gene Set Enrichment AnalysisAlexey Sergushichev		Alexey Sergushichevsoftware28 Apr 202628,66038
Rhdf5lib
hdf5 library as an R packageHugo Gruson		Hugo Grusonsoftware28 Apr 202628,6545
Rhtslib
HTSlib high-throughput sequencing library as an R packageHervé Pagès		Hervé Pagèssoftware28 Apr 202628,0831