motifmatchr
Fast Motif Matching in R
Bioconductor version: 3.24 · Package version: 1.35.0
Quickly find motif matches for many motifs and many sequences. Wraps C++ code from the MOODS motif calling library, which was developed by Pasi Rastas, Janne Korhonen, and Petri Martinmäki.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("motifmatchr")Details
| Maintainer | Alicia Schep <aschep@gmail.com> |
| Author | Alicia Schep [aut, cre], Stanford University [cph] |
| License | GPL-3 + file LICENSE |
| System Requirements | C++11 |
| Downloads rank | 2259 |
| Source branch | devel |
| biocViews | MotifAnnotation, Software |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | motifmatchr_1.35.0.tar.gz |
| Windows binary (x86_64) | motifmatchr_1.35.0.zip |
| macOS binary (arm64) | motifmatchr_1.35.0.tgz |
| macOS binary (x86_64) | motifmatchr_1.35.0.tgz |
Dependencies
Depends: R (>= 3.3)
Imports: Matrix, Rcpp, methods, TFBSTools, Biostrings, BSgenome, S4Vectors, SummarizedExperiment, GenomicRanges, IRanges, Rsamtools, Seqinfo
LinkingTo: Rcpp, RcppArmadillo
Suggests: testthat, knitr, rmarkdown, BSgenome.Hsapiens.UCSC.hg19
Reverse dependencies
Imports Me (5): ATACseqTFEA, enhancerHomologSearch, epiregulon, esATAC, pageRank
Suggests Me (4): CAGEWorkflow, chromVAR, GRaNIE, Signac