Packages
37 packages on Bioconductor tagged Spatial or MicroarrayData or SNP, most distinct IPs first
Spatial, MicroarrayData and SNP in Topics
| Package | Maintainer | Category | Latest version | Distinct IPs a month | Needs |
|---|---|---|---|---|---|
| BSgenome Software infrastructure for efficient representation of full genomes and their SNPsHervé Pagès | Hervé Pagès | software | 28 Apr 2026 | 14,375 | 57 |
| VariantAnnotation Annotation of Genetic VariantsBioconductor Package Maintainer | Bioconductor Package Maintainer | software | 28 Apr 2026 | 9,664 | 76 |
| siggenes Multiple Testing using SAM and Efron's Empirical Bayes ApproachesHolger Schwender | Holger Schwender | software | 28 Apr 2026 | 4,901 | 17 |
| oligo Preprocessing tools for oligonucleotide arraysBenilton Carvalho | Benilton Carvalho | software | 28 Apr 2026 | 4,087 | 52 |
| snpStats SnpMatrix and XSnpMatrix classes and methodsDavid Clayton | David Clayton | software | 28 Apr 2026 | 3,488 | 12 |
| Rsubread Mapping, quantification and variant analysis of sequencing dataWei Shi | Wei Shi | software | 28 Apr 2026 | 2,951 | 8 |
| GWASTools Tools for Genome Wide Association StudiesStephanie M. Gogarten | Stephanie M. Gogarten | software | 28 Apr 2026 | 1,634 | 94 |
| crlmm Genotype Calling (CRLMM) and Copy Number Analysis tool for Affymetrix SNP 5.0 and 6.0 and Illumina arraysBenilton S Carvalho | Benilton S Carvalho | software | 28 Apr 2026 | 1,504 | 65 |
| qpgraph Estimation of Genetic and Molecular Regulatory Networks from High-Throughput Genomics DataRobert Castelo | Robert Castelo | software | 28 Apr 2026 | 1,495 | 81 |
| GeneRegionScan GeneRegionScanLasse Folkersen | Lasse Folkersen | software | 28 Apr 2026 | 1,389 | 18 |
| deepSNV Detection of subclonal SNVs in deep sequencing data.Moritz Gerstung | Moritz Gerstung | software | 28 Apr 2026 | 1,286 | 79 |
| MinimumDistance A Package for De Novo CNV Detection in Case-Parent TriosRobert Scharpf | Robert Scharpf | software | 28 Apr 2026 | 1,161 | 97 |
| mBPCR Bayesian Piecewise Constant Regression for DNA copy number estimationP.M.V. Rancoita | P.M.V. Rancoita | software | 28 Apr 2026 | 949 | 113 |
| chopsticks The 'snp.matrix' and 'X.snp.matrix' ClassesHin-Tak Leung | Hin-Tak Leung | software | 28 Apr 2026 | 896 | 10 |
| hapFabia hapFabia: Identification of very short segments of identity by descent (IBD) characterized by rare variants in large sequencing dataAndreas Mitterecker | Andreas Mitterecker | software | 28 Apr 2026 | 886 | 9 |
| logicFS Identification of SNP InteractionsHolger Schwender | Holger Schwender | software | 28 Apr 2026 | 878 | 12 |
| CGEN An R package for analysis of case-control studies in genetic epidemiologyJustin Lee | Justin Lee | software | 28 Apr 2026 | 714 | 11 |
| RLMM A Genotype Calling Algorithm for Affymetrix SNP ArraysNusrat Rabbee | Nusrat Rabbee | software | 28 Apr 2026 | 712 | 6 |
| MassArray Analytical Tools for MassArray DataReid F. Thompson | Reid F. Thompson | software | 28 Apr 2026 | 684 | 5 |
| iASeq iASeq: integrating multiple sequencing datasets for detecting allele-specific eventsYingying Wei | Yingying Wei | software | 28 Apr 2026 | 600 | 2 |
| beadarraySNP Normalization and reporting of Illumina SNP bead arrays | no date on record | 584 | |||
| FlowSorted.Blood.450k Illumina HumanMethylation data on sorted blood cell populationsAndrew E Jaffe | Andrew E Jaffe | experiment | 5 May 2026 | 558 | 144 |
| GGtools software and data for analyses in genetics of gene expression | no date on record | 536 | |||
| trigger Transcriptional Regulatory Inference from Genetics of Gene ExpRession | no date on record | 516 | |||
| SNPchip Visualizations for copy number alterations | no date on record | 460 | |||
| davidTiling Data and analysis scripts for David, Huber et al. yeast tiling array paperWolfgang Huber | Wolfgang Huber | experiment | 5 May 2026 | 384 | 76 |
| genoset A RangedSummarizedExperiment with methods for copy number analysis | no date on record | 378 | |||
| Hiiragi2013 Cell-to-cell expression variability followed by signal reinforcement progressively segregates early mouse lineagesWolfgang Huber | Wolfgang Huber | experiment | 23 Jun 2026 | 338 | 67 |
| pd.atdschip.tiling Platform Design Info for Affymetrix Atdschip_tilingKristof De Beuf | Kristof De Beuf | experiment | 5 May 2026 | 319 | 53 |
| ConnectivityMap Functional connections between drugs, genes and diseases as revealed by common gene-expression changesPaul Shannon | Paul Shannon | experiment | 5 May 2026 | 281 | 0 |