A Tool for Summarizing and Comparing Taxonomic Reports for Biological Sequence Alignment Results
This is a tool that supports taxonomic report analysis for single and multiple query displays. Our preeminent contributions are mostly in the visual design for taxonomic reports, the ease interaction and manipulation for taxonomic profiles analysis and the format support for input files.
We propose an open source prototype that connects directly with the NCBI API to compute the comparisons and visualize its results. The implementation consists in a Python-based BackEnd and a React Application as interface.
In order to deploy the application, you need to install the prerequisites listen in the BackEnd/requirements.txt and FrontEnd/package.json file. Do the following:
# Clone this repository git clone https://github.com/mvanegas10/BioCicle.git # Go into the repository cd BioCicle # Install dependencies cd BackEnd conda create --name <env> --file ../requirements.txt pip install pymongo xmltramp2 requests flask biopython ete3 tqdm cd ../FrontEnd npm install # Run the app cd ../BackEnd mongod python src/app.py cd ../FrontEnd npm start
- EBI NCBI API