GRAFree2: A numerical representation technique of nucleotide sequence

---

GRAFree2, a modified version of GRAFree, is a python based program for representing a genomic sequence numerically and extract features from it. Important features of this method is summarized below.

• It plots the genome sequences in a two dimensional coordinate plane by considering successive shifts in x and y coordinates using three different encodings of DNA alphabets.
• During representing a nucleotide sequnece numerically, it considers various biological features and compositions of the sequence.
• Computes the drifts from the 2D representations. Represents each drifts by a 5-dimensional feature vector which further fragments for better resolution.

Download executable

GRAFree2.zip

For any queries, please contact:

• Aritra Mahapatra
  Department of Computer Science and Engineering
  Indian Institute of Technology Kharagpur
  Email: aritra DOT mhp AT iitkgp DOT ac DOT in
• Jayanta Mukherjee
  Department of Computer Science and Engineering
  Indian Institute of Technology Kharagpur
  Email: jay AT cse DOT iitkgp DOT ac DOT in