Hello community :)
Question 1. I am comparing the usage of two clustering algorithms, MCL and antiSMASH over a set of predetermined genomes. I have done quite some exploration and found interesting results. However, I wanted to create a phylogenetic tree from the clusters obtained (all .gbk files), would this be possible? Any suggestions on which algorithms would be interesting to view or how to?
Question 2. On another note, I ran the BiG-SCAPE algorithm on my gene clusters to measure their phylogenetic relationship. This algorithm basically gives a measure of distance between gene clusters and is represented in a dataframe such as:
BGC1 BGC2 Distance ------------------------------ BGC31 BGC34 0.6 BGC34 BGC45 0.7 BGC34 BGC53 0.2 BGC53 BGC31 0.8
Would it be possible to construct a tree just based on this type of data? I have been able to create network visualizations from this data through Cytoscape but not possibly a tree. Any further suggestions for this particular example?
Thanks once again for your input :)