SARStools

A collection of useful scripts for SARS-CoV-2 data

SARS-CoV-2 Mutation Analyzer

This script processes mutations in SARS-CoV-2 sequences, determines the effects of these mutations on amino acid sequences, and outputs the results in a tabular format.

Requirements

• Python 3.x
• pandas
• requests
• Biopython

You can install the required Python packages using pip:

pip install pandas requests biopython
#OR
pip3 install pandas requests biopython

Input Example

Go to a tsv file for the example:

wget https://raw.githubusercontent.com/PathoGenOmics-Lab/SARStools/main/in.file

Running the Script

You can run the script from the command line as follows:

python3 get_mutations.py -i input_file.tsv -o output_file.tsv