Skip to content

README.md

Latest commit

 

History

History
21 lines (20 loc) · 654 Bytes

README.md

File metadata and controls

21 lines (20 loc) · 654 Bytes

CS5390FinalProject

Course Link: http://cs5390f19.deblasiolab.org/
Implementation of five different algorithms in computational biology: From sequence alignment to compression.

Requirements:

  • python==3.7.4
  • numpy==1.17.2

Setup

  • brew install python3
  • pip install numpy

Usage:

python name_of_file.py input.txt
[for Needleman-Wunsch, Smith-Waterman, Edit Disatance]
python name_of_file.py input_bwt.txt
[for Burrows wheeler]
python name_of_file.py input_longest_repeated_sub.txt
[for Longest repeated substring]
Or python name_of_file.py (as file contains sample strings)
  • For BWT, please insert $ at the end of the string.