Genbank data visualization webapp
Project description
GBKviz: Genbank Data Visualization WebApp
Overview
GBKviz is a web-based Genbank data visualization tool developed with streamlit web framework. GBKviz allows user to easily and flexibly draw CDSs in specified genomic region. It also supports drawing genome comparison results by MUMmer.
Demo GIF here...
Install
GBKviz is implemented in Python3 (Tested on Ubuntu20.04)
Install PyPI stable version with pip:
pip install gbkviz
If you want to enable genome comparison in GBKviz, MUMmer is required.
Install MUMmer with apt command (Ubuntu):
sudo apt install mummer
Dependencies
-
Streamlit
Web framework for quick development -
BioPython
Utility tools for computational molecular biology -
MUMmer
Genome alignment tool for comparative genomics
Command Usage
Launch GBKviz in web browser (http://localhost:8501):
gbkviz_webapp
Usage
SideBar Widgets
Load example genbank files
CheckboxLabel
CheckboxScaleTicks
CheckboxTopOnly
CheckboxFeature Label Type
SelectboxFeature Symbol
SelectboxLabel Angle
SelectboxScaleTicks Interval
SelectboxLabel Font Size
NumberinputScaleTicks Font Size
NumberinputFig Width(cm)
SliderFig Track Height(cm)
SliderFig Track Size
SliderTarget Feature Types
MultiselectCDS
Colorpickergene
ColorpickertRNA
Colorpickermisc
ColorpickerGenome Comparison Type
SelectboxCross Link (Normal)
ColorpickerCross Link (Inverted)
Colorpicker
Project details
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.