Instructions for AA_divergence_wbw.pl

This program is designed to calculate amino acid divergence window by window that user defined from a set of aligned amino acid sequences.

Input

  1. Amino acid sequence alignment file in fasta.
  2. Window size (default: 9 amino acids).
  3. Window stride size (default: 1 amino acids).

Output

  1. Tab delimited table of divergence in each window.

How to run

  1. Download AA_divergence_wbw_xxx.zip to your computer, expand it and type the following command in your working directory:

    perl AA_divergence_wbw.pl -ia AASeqAlignFile -od OtputFile -ws WindowSize -ss StrideSize

Download AA_divergence_wbw.pl