gmoviz
Seamless visualization of complex genomic variations in GMOs and edited cell lines
Bioconductor version: Release (3.20)
Genetically modified organisms (GMOs) and cell lines are widely used models in all kinds of biological research. As part of characterising these models, DNA sequencing technology and bioinformatics analyses are used systematically to study their genomes. Therefore, large volumes of data are generated and various algorithms are applied to analyse this data, which introduces a challenge on representing all findings in an informative and concise manner. `gmoviz` provides users with an easy way to visualise and facilitate the explanation of complex genomic editing events on a larger, biologically-relevant scale.
Author: Kathleen Zeglinski [cre, aut], Arthur Hsu [aut], Monther Alhamdoosh [aut] 
, Constantinos Koutsakis [aut]
Maintainer: Kathleen Zeglinski <kathleen.zeglinski at csl.com.au>
citation("gmoviz")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("gmoviz")
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("gmoviz")| Advanced usage of gmoviz | HTML | R Script |
| Introduction to gmoviz | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Coverage, GeneticVariability, GenomicVariation, Sequencing, Software, Visualization |
| Version | 1.18.0 |
| In Bioconductor since | BioC 3.11 (R-4.0) (4.5 years) |
| License | GPL-3 |
| Depends | circlize, GenomicRanges, graphics, R (>= 4.0) |
| Imports | grid, gridBase, Rsamtools, ComplexHeatmap, BiocGenerics, Biostrings, GenomeInfoDb, methods, GenomicAlignments, GenomicFeatures, IRanges, rtracklayer, pracma, colorspace, S4Vectors |
| System Requirements | |
| URL |
See More
| Suggests | testthat, knitr, rmarkdown, pasillaBamSubset, BiocStyle, BiocManager |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | gmoviz_1.18.0.tar.gz |
| Windows Binary (x86_64) | gmoviz_1.18.0.zip |
| macOS Binary (x86_64) | gmoviz_1.18.0.tgz |
| macOS Binary (arm64) | gmoviz_1.18.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/gmoviz |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/gmoviz |
| Bioc Package Browser | https://code.bioconductor.org/browse/gmoviz/ |
| Package Short Url | https://bioconductor.org/packages/gmoviz/ |
| Package Downloads Report | Download Stats |