motifStack
Plot stacked logos for single or multiple DNA, RNA and amino acid sequence
Bioconductor version: 3.23 · Package version: 1.56.0
The motifStack package is designed for graphic representation of multiple motifs with different similarity scores. It works with both DNA/RNA sequence motif and amino acid sequence motif. In addition, it provides the flexibility for users to customize the graphic parameters such as the font type and symbol colors.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("motifStack") Details
| Maintainer | Jianhong Ou <jou@morgridge.org> |
| Author | Jianhong Ou, Michael Brodsky, Scot Wolfe and Lihua Julie Zhu |
| License | GPL (>= 2) |
| Downloads rank | 1155 |
| Source branch | RELEASE_3_23 |
| biocViews | Alignment, ChIPSeq, ChIPchip, DataImport, Microarray, MotifAnnotation, SequenceMatching, Sequencing, Software, Visualization |
Documentation
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Dependencies
Depends: R (>= 2.15.1), methods, grid
Imports: ade4, Biostrings, ggplot2, grDevices, graphics, htmlwidgets, stats, stats4, utils, XML, TFBSTools
Suggests: Cairo, grImport, grImport2, BiocGenerics, MotifDb, RColorBrewer, BiocStyle, knitr, RUnit, rmarkdown, JASPAR2020
Reverse dependencies
Depends On Me (1): generegulation
Imports Me (5): ATACseqQC, atSNP, dagLogo, motifbreakR, ribosomeProfilingQC
Suggests Me (5): ChIPpeakAnno, TFutils, trackViewer, tripr, universalmotif