| Package Name | Access | Summary | Updated |
|---|---|---|---|
| r-vcfr | public | Facilitates easy manipulation of variant call format (VCF) data. Functions are provided to rapidly read from and write to VCF files. Once VCF data is read into R a parser function extracts matrices of data. This information can then be used for quality control or other purposes. Additional functions provide visualization of genomic data. Once processing is complete data may be written to a VCF file (*.vcf.gz). It also may be converted into other popular R objects (e.g., genlight, DNAbin). VcfR provides a link between VCF data and familiar R software. | 2025-04-22 |
| r-pinfsc50 | public | Genomic data for the plant pathogen "Phytophthora infestans." It includes a variant file ('VCF'), a sequence file ('FASTA') and an annotation file ('GFF'). This package is intended to be used as example data for packages that work with genomic data. | 2025-04-22 |
| sccaller | public | Dong X et al. Accurate identification of single-nucleotide variants in whole-genome-amplified single cells. Nat Methods. 2017 May;14(5):491-493. doi: 10.1038/nmeth.4227 | 2025-04-22 |
| bioconductor-homo.sapiens | public | Contains the Homo.sapiens object to access data from several related annotation packages. | 2025-04-22 |
| r-haplo.stats | public | Routines for the analysis of indirectly measured haplotypes. The statistical methods assume that all subjects are unrelated and that haplotypes are ambiguous (due to unknown linkage phase of the genetic markers). The main functions are: haplo.em(), haplo.glm(), haplo.score(), and haplo.power(); all of which have detailed examples in the vignette. | 2025-04-22 |
| bioconductor-lmgene | public | LMGene Software for Data Transformation and Identification of Differentially Expressed Genes in Gene Expression Arrays | 2025-04-22 |
| bioconductor-cytolib | public | C++ infrastructure for representing and interacting with the gated cytometry data | 2025-04-22 |
| lohhla | public | A computational tool to evaluate HLA loss using next-generation sequencing data. | 2025-04-22 |
| bioconductor-imagehts | public | Analysis of high-throughput microscopy-based screens | 2025-04-22 |
| bioconductor-ideoviz | public | Plots data (continuous/discrete) along chromosomal ideogram | 2025-04-22 |
| bioconductor-idiogram | public | idiogram | 2025-04-22 |
| bioconductor-hiannotator | public | Functions for annotating GRanges objects | 2025-04-22 |
| bioconductor-bladderbatch | public | Bladder gene expression data illustrating batch effects | 2025-04-22 |
| bioconductor-flowpeaks | public | An R package for flow data clustering | 2025-04-22 |
| bioconductor-flowmap | public | Mapping cell populations in flow cytometry data for cross-sample comparisons using the Friedman-Rafsky Test | 2025-04-22 |
| bioconductor-flowclean | public | flowClean | 2025-04-22 |
| bioconductor-frma | public | Frozen RMA and Barcode | 2025-04-22 |
| bioconductor-frmatools | public | Frozen RMA Tools | 2025-04-22 |
| bioconductor-fccac | public | functional Canonical Correlation Analysis to evaluate Covariance between nucleic acid sequencing datasets | 2025-04-22 |
| bioconductor-rprotobuflib | public | C++ headers and static libraries of Protocol buffers | 2025-04-22 |
| bioconductor-genemeta | public | MetaAnalysis for High Throughput Experiments | 2025-04-22 |
| bioconductor-beachmat | public | Compiling Bioconductor to Handle Each Matrix Type | 2025-04-22 |
| bioconductor-hdf5array | public | HDF5 datasets as array-like objects in R | 2025-04-22 |
| bioconductor-rhdf5lib | public | hdf5 library as an R package | 2025-04-22 |
| bioconductor-flowrepositoryr | public | FlowRepository R Interface | 2025-04-22 |
