k-florek / QuickSNP

QuickSNP builds a NJ tree from a SNP distance matrix.

QuickSNP

A python script to quickly build a Neighbor Joining tree using only a SNP distance matrix.

usage: QuickSNP <dm> <outtree>

QuickSNP builds a NJ tree from a SNP distance matrix.

positional arguments:
  dm          SNP distance matrix CSV/TSV file with column headers and row names in square format.
  outtree     File name for Newick format tree.

optional arguments:
  -h, --help  show this help message and exit

Python Dependencies:

• pandas==1.4.3
• numpy==1.22.4
• scikit-bio==0.5.7