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TaxoTagger Webapp

TaxoTagger webapp is a user-friendly interface for the TaxoTagger library. It allows users to interact with the TaxoTagger library through a web browser. Users can upload DNA sequences and search for the taxonomy of the sequences using the TaxoTagger library.

The webapp is available at https://github.com/MycoAI/taxotagger-webapp.

Below are the instructions to deploy and use the webapp.

Deployment for exploration

Installation

  1. Clone the repository to your local machine 

    git clone https://github.com/MycoAI/taxotagger-webapp.git

  2. Install the required packages 

    # Go to the taxotagger-webapp directory
cd taxotagger-webapp

# Create a new conda environment `taxotagger-webapp`
conda create -n taxotagger-webapp python=3.10

# Go to the conda environment
conda activate taxotagger-webapp

# Install the required packages
pip install -r requirements.txt

Run the webapp

  1. Set the environment variables MYCOAI_HOME

    export MYCOAI_HOME=/your/path/to/taxotagger-webapp/data

    set MYCOAI_HOME=C:\your\path\to\taxotagger-webapp\data

    Set the environment variable MYCOAI_HOME to the path of the data directory of your local webapp repository. The data directory contains the example vector databases for demo purposes.

  2. Start the webapp

    streamlit run app.py # (1)!
    1. Make sure you are in the taxotagger-webapp directory and the right conda environment is activated.

    Then you can open the webapp in your browser by visiting the URL http://localhost:8501.

    Note

    For the first time running, the webapp will download the embedding model files. This may take a few minutes depending on the internet connection speed.

Production deployment

The vector databases provided in the data directory are for demo purposes only. To use the webapp in production, you should prepare the vector databases using the production data. To build the vector database, you can follow the instructions in the Build a vector database page.