bumphunter
Bump Hunter
Bioconductor version: 3.23 · Package version: 1.54.0
Tools for finding bumps in genomic data
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("bumphunter")Details
| Maintainer | Tamilselvi Guharaj <selvi@ds.dfci.harvard.edu> |
| Author | Rafael A. Irizarry [aut], Martin Aryee [aut], Kasper Daniel Hansen [aut], Hector Corrada Bravo [aut], Shan Andrews [ctb], Andrew E. Jaffe [ctb], Harris Jaffee [ctb], Leonardo Collado-Torres [ctb], Tamilselvi Guharaj [cre] |
| License | Artistic-2.0 |
| URL | https://github.com/rafalab/bumphunter |
| Downloads rank | 3541 |
| Source branch | RELEASE_3_23 |
| biocViews | DNAMethylation, Epigenetics, ImmunoOncology, Infrastructure, MultipleComparison, Software |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | bumphunter_1.54.0.tar.gz |
| Windows binary (x86_64) | bumphunter_1.54.0.zip |
| macOS binary (arm64) | bumphunter_1.54.0.tgz |
| macOS binary (x86_64) | bumphunter_1.54.0.tgz |
Dependencies
Depends: R (>= 3.5), S4Vectors (>= 0.9.25), IRanges (>= 2.3.23), Seqinfo, GenomicRanges, foreach, iterators, methods, parallel, locfit
Imports: matrixStats, limma, doRNG, BiocGenerics, utils, GenomicFeatures, AnnotationDbi, stats
Suggests: testthat, RUnit, doParallel, GenomeInfoDb, txdbmaker, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene
Reverse dependencies
Depends On Me (1): minfi
Imports Me (12): ChAMP, coMethDMR, DAMEfinder, derfinder, dmrseq, epimutacions, epivizr, GenomicState, methylCC, recountWorkflow, rnaEditr, vmrseq
Suggests Me (4): bigmelon, derfinderPlot, epivizrData, regionReport