A python script for bacterial genome analysis

Final project for 03-701 Practical Computing for Biological Sciences at CM

Object

Create a Python script that can examine the whole genom for bacterial and using BLAST to compare the protein sequences with database

How to use the script

1. Download whole genomics sequence from NCBI
2. Put the file in the same folder with the scipt
3. In terminal, execute command 'script.py'
4. When the message appear on the terminal, input the file name of whole genomics

Result

The Script returns BLAST results for amino acid sequence which length are between 600 to 900

Reference

Biopython. (2022). Handling sequences with the Seq class. Retrieved October, 2022, from https://biopython.org/wiki/Seq

Andrzej.E., Jim.O. The Genetic Codes. NCBI. Retrieved October, 2022, from https://www.ncbi.nlm.nih.gov/Taxonomy/Utils/wprintgc.cgi?chapter=tgencodes#SG11

Jeff.C., Brand., Iddo., Thomas., Michiel., Peter., Tiago., Eric., Bartek. (2021) Biopython Tutorial and Cookbook. Biopython. Retrieved October 2022, from http://biopython.org/DIST/docs/tutorial/Tutorial.html#sec124