Packages
361 packages on Bioconductor tagged Normalization or BSgenome or Coverage, most distinct IPs first
Normalization, BSgenome and Coverage in Topics
| Package | Maintainer | Category | Latest version | Distinct IPs a month | Needs |
|---|---|---|---|---|---|
| GenomicRanges Representation and manipulation of genomic intervalsHervé Pagès | Hervé Pagès | software | 28 Apr 2026 | 56,974 | 10 |
| SummarizedExperiment A container (S4 class) for matrix-like assaysHervé Pagès | Hervé Pagès | software | 28 Apr 2026 | 53,484 | 24 |
| limma Linear Models for Microarray and Omics DataGordon Smyth | Gordon Smyth | software | 10 Aug 2026 | 45,965 | 6 |
| edgeR Empirical Analysis of Digital Gene Expression Data in RYunshun Chen | Yunshun Chen | software | 19 Oct 2026 | 32,392 | 10 |
| DESeq2 Differential gene expression analysis based on the negative binomial distributionMichael Love | Michael Love | software | 28 Apr 2026 | 32,072 | 54 |
| Rsamtools Binary alignment (BAM), FASTA, variant call (BCF), and tabix file importBioconductor Package Maintainer | Bioconductor Package Maintainer | software | 28 Apr 2026 | 30,337 | 28 |
| GenomicAlignments Representation and manipulation of short genomic alignmentsHervé Pagès | Hervé Pagès | software | 28 Apr 2026 | 27,006 | 41 |
| HDF5Array HDF5 datasets as array-like objects in RHervé Pagès | Hervé Pagès | software | 28 Apr 2026 | 20,537 | 28 |
| scuttle Legacy Utilities for Single-Cell RNA-Seq AnalysisAaron Lun | Aaron Lun | software | 28 Apr 2026 | 14,236 | 39 |
| scater Single-Cell Analysis Toolkit for Gene Expression Data in RAlan O'Callaghan | Alan O'Callaghan | software | 2 Jul 2026 | 12,635 | 78 |
| ensembldb Utilities to create and use Ensembl-based annotation databasesJohannes Rainer | Johannes Rainer | software | 25 May 2026 | 11,000 | 80 |
| sva Surrogate Variable AnalysisJeffrey T. Leek | Jeffrey T. Leek | software | 5 May 2026 | 10,804 | 68 |
| scran Methods for Single-Cell RNA-Seq Data AnalysisAaron Lun | Aaron Lun | software | 28 Apr 2026 | 10,139 | 62 |
| batchelor Single-Cell Batch Correction MethodsAaron Lun | Aaron Lun | software | 28 Apr 2026 | 5,720 | 56 |
| BSgenome.Hsapiens.UCSC.hg38 Full genomic sequences for Homo sapiens (UCSC genome hg38)Bioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 4,989 | 60 |
| AUCell AUCell: Analysis of 'gene set' activity in single-cell RNA-seq data (e.g. identify cells with specific gene signatures)Gert Hulselmans | Gert Hulselmans | software | 29 Apr 2026 | 4,610 | 115 |
| DropletUtils Utilities for Handling Single-Cell Droplet DataJonathan Griffiths | Jonathan Griffiths | software | 27 Sep 2026 | 4,107 | 59 |
| minfi Analyze Illumina Infinium DNA methylation arraysKasper Daniel Hansen | Kasper Daniel Hansen | software | 28 Apr 2026 | 4,041 | 143 |
| variancePartition Quantify and interpret drivers of variation in multilevel gene expression experimentsGabriel E. Hoffman | Gabriel E. Hoffman | software | 28 Apr 2026 | 3,211 | 99 |
| ANCOMBC Microbiome differential abudance and correlation analyses with bias correctionHuang Lin | Huang Lin | software | 28 Apr 2026 | 3,000 | 130 |
| metagenomeSeq Statistical analysis for sparse high-throughput sequencingJoseph N. Paulson | Joseph N. Paulson | software | 28 Apr 2026 | 2,924 | 32 |
| BSgenome.Hsapiens.UCSC.hg19 Full genome sequences for Homo sapiens (UCSC version hg19, based on GRCh37.p13)Bioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 2,842 | 58 |
| Wrench Wrench normalization for sparse count dataHector Corrada Bravo | Hector Corrada Bravo | software | 28 Apr 2026 | 2,619 | 11 |
| systemPipeR systemPipeR: A Multipurpose Workflow Management System for Reproducible Data AnalysisThomas Girke | Thomas Girke | software | 28 Apr 2026 | 2,506 | 94 |
| DiffBind Differential Binding Analysis of ChIP-Seq Peak DataRory Stark | Rory Stark | software | 21 Jul 2026 | 2,490 | 141 |
| bamsignals Extract read count signals from bam filesJohannes Helmuth | Johannes Helmuth | software | 21 May 2026 | 2,202 | 14 |
| 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 |
| EnrichedHeatmap Making Enriched HeatmapsZuguang Gu | Zuguang Gu | software | 28 Apr 2026 | 2,002 | 35 |
| missMethyl Analysing Illumina HumanMethylation BeadChip DataBelinda Phipson | Belinda Phipson | software | 12 May 2026 | 1,987 | 169 |
| karyoploteR Plot customizable linear genomes displaying arbitrary dataBernat Gel | Bernat Gel | software | 28 Apr 2026 | 1,962 | 131 |