MatrixRider
Obtain total affinity and occupancies for binding site matrices on a given sequence
Bioconductor version: 3.24 · Package version: 1.45.0
Calculates a single number for a whole sequence that reflects the propensity of a DNA binding protein to interact with it. The DNA binding protein has to be described with a PFM matrix, for example gotten from Jaspar.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("MatrixRider")Details
| Maintainer | Elena Grassi <grassi.e@gmail.com> |
| Author | Elena Grassi |
| License | GPL-3 |
| Downloads rank | 520 |
| Source branch | devel |
| biocViews | GeneRegulation, Genetics, MotifAnnotation, Software |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | MatrixRider_1.45.0.tar.gz |
| Windows binary (x86_64) | MatrixRider_1.45.0.zip |
| macOS binary (arm64) | MatrixRider_1.45.0.tgz |
| macOS binary (x86_64) | MatrixRider_1.45.0.tgz |
Dependencies
Depends: R (>= 3.1.2)
Imports: methods, TFBSTools, IRanges, XVector, Biostrings
LinkingTo: IRanges, XVector, Biostrings, S4Vectors
Suggests: RUnit, BiocGenerics, BiocStyle, JASPAR2014