DESCRIPTION
bbFilter <backbone file> <independent dist> <output file> <beast|gp> [<seq1> <seq2>...<seqN>]seq index starts at 0.
EXAMPLES
Example:- bbFilter my_alignment.backbone 50 my_feats.bin gp
the above command extracts binary features from "my_alignment.backbone" which are separated by a minimum of 50nt sequence conserved among all taxa in the alignment. The output is written to my_feats.bin in genoplast format
Example 2:
- bbFilter aln.backbone 100 feats.xml beast 0 1 2 5 6
the above command extracts binary features from "aln.backbone" which are separated by a minimum of 100nt sequence conserved among genomes 0,1,2,5, and 6 from the alignment. The output is written to feats.xml in beast format