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bbFilter - this is a part of mauveAligner package

BBFILTER(1) User Commands BBFILTER(1)

NAME

bbFilter - this is a part of mauveAligner package

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
April 2015 bbFilter 1.2.0+4713