Packages
197 packages on Bioconductor tagged Spatial or GeneRegulation or Mus_musculus, most distinct IPs first
Spatial, GeneRegulation and Mus_musculus in Topics
| Package | Maintainer | Category | Latest version | Distinct IPs a month | Needs |
|---|---|---|---|---|---|
| org.Mm.eg.db Genome wide annotation for MouseBioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 13,520 | 42 |
| TCGAbiolinks TCGAbiolinks: An R/Bioconductor package for integrative analysis with GDC dataTiago Chedraoui Silva | Tiago Chedraoui Silva | software | 28 Apr 2026 | 6,750 | 103 |
| TFBSTools Software Package for Transcription Factor Binding Site (TFBS) AnalysisGe Tan | Ge Tan | software | 28 Apr 2026 | 4,721 | 79 |
| Rsubread Mapping, quantification and variant analysis of sequencing dataWei Shi | Wei Shi | software | 28 Apr 2026 | 2,951 | 8 |
| CNEr CNE Detection and VisualizationBoris Lenhard | Boris Lenhard | software | 28 Apr 2026 | 2,692 | 112 |
| DiffBind Differential Binding Analysis of ChIP-Seq Peak DataRory Stark | Rory Stark | software | 21 Jul 2026 | 2,490 | 141 |
| chromVAR Chromatin Variation Across RegionsAlicia Schep | Alicia Schep | software | 11 May 2026 | 2,255 | 134 |
| TxDb.Mmusculus.UCSC.mm10.knownGene Annotation package for TxDb object(s)Bioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 2,192 | 75 |
| BSgenome.Mmusculus.UCSC.mm10 Full genome sequences for Mus musculus (UCSC version mm10, based on GRCm38.p6)Bioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 2,152 | 58 |
| universalmotif Import, Modify, and Export Motifs with RBenjamin Jean-Marie Tremblay | Benjamin Jean-Marie Tremblay | software | 3 May 2026 | 2,133 | 39 |
| viper Virtual Inference of Protein-activity by Enriched Regulon analysisMariano J Alvarez | Mariano J Alvarez | software | 28 Apr 2026 | 2,060 | 87 |
| progeny Pathway RespOnsive GENes for activity inference from gene expressionAurélien Dugourd | Aurélien Dugourd | software | 28 Apr 2026 | 2,012 | 58 |
| RcisTarget RcisTarget Identify transcription factor binding motifs enriched on a list of genes or genomic regionsGert Hulselmans | Gert Hulselmans | software | no date on record | 1,724 | |
| qpgraph Estimation of Genetic and Molecular Regulatory Networks from High-Throughput Genomics DataRobert Castelo | Robert Castelo | software | 28 Apr 2026 | 1,495 | 81 |
| GUIDEseq GUIDE-seq and PEtag-seq analysis pipelineLihua Julie Zhu | Lihua Julie Zhu | software | 28 Apr 2026 | 1,256 | 179 |
| INSPEcT Modeling RNA synthesis, processing and degradation with RNA-seq dataStefano de Pretis | Stefano de Pretis | software | 28 Apr 2026 | 1,213 | 123 |
| ATACseqQC ATAC-seq Quality ControlJianhong Ou | Jianhong Ou | software | 16 Jul 2026 | 1,150 | 172 |
| SPONGE Sparse Partial Correlations On Gene ExpressionMarkus List | Markus List | software | 11 Jun 2026 | 1,143 | 187 |
| BCRANK Predicting binding site consensus from ranked DNA sequencesAdam Ameur | Adam Ameur | software | 28 Apr 2026 | 1,138 | 15 |
| NADfinder Call wide peaks for sequencing dataJianhong Ou | Jianhong Ou | software | 28 Apr 2026 | 1,122 | 225 |
| rTRM Identification of Transcriptional Regulatory Modules from Protein-Protein Interaction NetworksDiego Diez | Diego Diez | software | 28 Apr 2026 | 1,117 | 47 |
| TFEA.ChIP TFEA.ChIP, a Tool Kit for Transcription Factor EnrichmentYosra Berrouayel | Yosra Berrouayel | software | 28 Apr 2026 | 1,105 | 106 |
| GDCRNATools GDCRNATools: an R/Bioconductor package for integrative analysis of lncRNA, mRNA, and miRNA data in GDCRuidong Li | Ruidong Li | software | 28 Apr 2026 | 1,097 | 235 |
| pandaR PANDA AlgorithmJoseph N. Paulson | Joseph N. Paulson | software | 28 Apr 2026 | 1,093 | 37 |
| cicero Predict cis-co-accessibility from single-cell chromatin accessibility dataHannah Pliner | Hannah Pliner | software | 28 Apr 2026 | 1,077 | 179 |
| mouse4302.db Affymetrix Affymetrix Mouse430_2 Array annotation data (chip mouse4302)Bioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 1,058 | 43 |
| CAGEfightR Analysis of Cap Analysis of Gene Expression (CAGE) data using BioconductorMalte Thodberg | Malte Thodberg | software | 28 Apr 2026 | 1,053 | 158 |
| MoonlightR Identify oncogenes and tumor suppressor genes from omics dataMatteo Tiberti | Matteo Tiberti | software | 28 Apr 2026 | 1,048 | 186 |
| LOLA Locus overlap analysis for enrichment of genomic rangesNathan Sheffield | Nathan Sheffield | software | 28 Apr 2026 | 1,039 | 24 |
| pqsfinder Identification of potential quadruplex forming sequencesJiri Hon | Jiri Hon | software | 28 Apr 2026 | 1,028 | 18 |