riboTransVis is an R package specifically developed for analyzing and visualizing Ribo-seq (ribosome profiling) data, offering comprehensive features including quality control metrics, RPF occupancy visualization, and metagene analysis. The package supports both transcriptome-aligned and genome-aligned BAM files, expanding its utility across different ribosome profiling experimental designs. Its efficient data processing strategy selectively extracts alignment data from specific genomic regions using GTF annotations, rather than loading entire BAM files into memory, significantly improving computational efficiency for single-gene visualizations. The package includes essential functionalities such as read length distribution analysis, frame-specific ribosome density visualization, RPM normalization, and rolling window smoothing, while seamlessly integrating with ggplot2 for publication-quality visualizations. These features, combined with its optimized performance, make riboTransVis an invaluable tool for computational biologists and RNA researchers investigating mRNA translation dynamics.
You can install the development version of riboTransVis like so:
# install.packages("devtools")
devtools::install_github("junjunlab/riboTransVis")
# or
remotes::install_github("junjunlab/riboTransVis")A detailed documentation is at https://junjunlab.github.io/riboTransVis-manual/
Jun Zhang (2025). RiboTransVis: An R Package for Integrated Analysis and Visualization of Ribosome Profiling Data. https://github.com/junjunlab/riboTransVis
We welcome any ideas or suggestions you may have for riboTransVis. Your feedback is invaluable in helping us improve the project. If you are interested in contributing, please feel free to reach out to us directly.
Additionally, we invite you to contribute your code on our GitHub repository for ribotransvis. Collaborating with the community is key to enhancing the functionality and usability of our tools, and we would love to see your contributions!