Bootstrapping an Existing Tree
LSD Tree
iqtree \
-s lsd.filter.aln \
-te lsd.filter.nwk \
-m K3Pu+F+I \
-b 10 \
-pre test \
-fconst `cat /mnt/c/Users/ktmea/Projects/plague-phylogeography-projects/main/snippy_multi/all/chromosome/full/snippy-multi.constant_sites.txt`
Constraints:
- The input tree must be a properly formatted newick.
Adding the fconst parameter makes this slightly slower. This also changes the branch lengths of the output tree… And the values are all 100…