seqLogo
Sequence logos for DNA sequence alignments
Bioconductor version: Release (3.19)
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 (from within R, enter
citation("seqLogo")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
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 | 1.70.0 |
In Bioconductor since | BioC 2.0 (R-2.5) (17.5 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 | rGADEM, generegulation |
Imports Me | IntEREst, PWMEnrich, RCAS, rGADEM, riboSeqR, scanMiR, SPLINTER, TFBSTools, kmeRtone |
Suggests Me | BCRANK, DiffLogo, igvR, MAGAR, motifcounter, MotifDb, universalmotif |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | seqLogo_1.70.0.tar.gz |
Windows Binary | seqLogo_1.70.0.zip (64-bit only) |
macOS Binary (x86_64) | seqLogo_1.70.0.tgz |
macOS Binary (arm64) | seqLogo_1.70.0.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 |