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
- Amino acid sequence alignment file in fasta.
- Window size (default: 9 amino acids).
- Window stride size (default: 1 amino acids).
Output
- Tab delimited table of divergence in each window.
How to run
- 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