seqLogo
This is the development version of seqLogo; for the stable release version, see seqLogo.
Sequence logos for DNA sequence alignments
Bioconductor version: Development (3.22)
seqLogo takes the position weight matrix of a DNA sequence motif and plots the corresponding sequence logo as introduced by Schneider and Stephens (1990).
Author: Oliver Bembom [aut], Robert Ivanek [aut, cre]
Maintainer: Robert Ivanek <robert.ivanek at unibas.ch>
citation("seqLogo")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("seqLogo")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("seqLogo")| Sequence logos for DNA sequence alignments | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | SequenceMatching, Software |
| Version | 1.75.0 |
| In Bioconductor since | BioC 2.0 (R-2.5) (18.5 years) |
| License | LGPL (>= 2) |
| Depends | R (>= 4.2), methods, grid |
| Imports | stats4, grDevices |
| System Requirements | |
| URL | |
| Bug Reports | https://github.com/ivanek/seqLogo/issues |
See More
| Suggests | knitr, BiocStyle, rmarkdown, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | generegulation |
| Imports Me | IntEREst, PWMEnrich, RCAS, riboSeqR, scanMiR, SPLINTER, TENET, TFBSTools, kmeRtone |
| Suggests Me | BCRANK, DiffLogo, igvR, MAGAR, motifcounter, MotifDb, PMScanR, universalmotif |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | seqLogo_1.75.0.tar.gz |
| Windows Binary (x86_64) | seqLogo_1.75.0.zip |
| macOS Binary (x86_64) | seqLogo_1.75.0.tgz |
| macOS Binary (arm64) | seqLogo_1.75.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/seqLogo |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/seqLogo |
| Bioc Package Browser | https://code.bioconductor.org/browse/seqLogo/ |
| Package Short Url | https://bioconductor.org/packages/seqLogo/ |
| Package Downloads Report | Download Stats |