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Bioconductor version: Release (3.14)
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.
Author: Alicia Schep [aut, cre], Stanford University [cph]
Maintainer: Alicia Schep <aschep at gmail.com>
Citation (from within R,
enter citation("motifmatchr")
):
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("motifmatchr")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("motifmatchr")
HTML | R Script | motifmatchr |
Reference Manual | ||
Text | NEWS | |
Text | LICENSE |
biocViews | MotifAnnotation, Software |
Version | 1.16.0 |
In Bioconductor since | BioC 3.6 (R-3.4) (4.5 years) |
License | GPL-3 + file LICENSE |
Depends | R (>= 3.3) |
Imports | Matrix, Rcpp, methods, TFBSTools, Biostrings, BSgenome, S4Vectors, SummarizedExperiment, GenomicRanges, IRanges, Rsamtools, GenomeInfoDb |
LinkingTo | Rcpp, RcppArmadillo |
Suggests | testthat, knitr, rmarkdown, BSgenome.Hsapiens.UCSC.hg19 |
SystemRequirements | C++11 |
Enhances | |
URL | |
Depends On Me | |
Imports Me | enhancerHomologSearch, enrichTF, esATAC, pageRank, spatzie |
Suggests Me | CAGEWorkflow, chromVAR, MethReg |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | motifmatchr_1.16.0.tar.gz |
Windows Binary | motifmatchr_1.16.0.zip |
macOS 10.13 (High Sierra) | motifmatchr_1.16.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/motifmatchr |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/motifmatchr |
Package Short Url | https://bioconductor.org/packages/motifmatchr/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.14 | Source Archive |
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