Primertool

The premise of this package is to generate primers for PCR/Sanger sequencing for either:

• a specific variant (hgvs variant nomenclature), either the whole exon or if not in an exon for the genomic position
• an exon (transcript number and exon )
• all exons of a transcript (transcript number)
• around a genomic position (chromosome and start/stop position)

This tool allows for primers based in hg19 or hg38.

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Table of Contents

• Setup
  • Docker Installation (Deployment)
  • Manual Installation (Development)
• Documentation
• License

Setup

Clone the repository

git clone https://github.com/IHGGM-Aachen/primertool.git

and navigate to the cloned repository.

Docker Installation (Deployment)

Requires Docker installed.

1. Build the Docker image

   docker build -t primertool .

2. Run the Docker container

   docker run -p 8501:8501 primertool

Manual Installation (Development)

1. Install requirements

   pip install requirements.txt

2. Run the application

   streamlit run /path/to/primertool/streamlit_main.py

   The application will now be running on http://localhost:8501 and can be accessed through a web browser.

Documentation

The full documentation can be viewed here: Primertool Documentation

License

This project is licensed under the MIT License - see the LICENSE file for details.