A transcriptome browser for Ribo-Seq and RNA-Seq data
Trips-viz is a transcriptome browser designed to visualize Ribosome profiling and RNA-seq data at the level of a single gene/transcript isoform as opposed to at the genome level. Trips-viz also provides you the ability to vizualize data from a gene under different conditions, get meta-information at an individual dataset level such as read length distribution or triplet periodicity, and provides the ability to find differentially expressed or translated genes.
To run Trips-Viz locally follow these steps (Note: Trips-Viz requires python 3.6):
- rename trips_empty_db.sqlite to trips.sqlite,
- rename config_template.py to config.py.
- Install the packages in requirements.txt (pip install -r requirements.txt)
- Install git (apt-get install git)
- Install mpld3 (pip install -e git+git://github.com/skiniry/mpld3.git@master#egg=mpld3)
- Run the command: python3.6 init.py true 5000
- Navigate to 0.0.0.0:5000/ in a browser (if running on a server replace 0.0.0.0 with the server IP).