.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.46.4.
.TH BBFILTER "1" "April 2015" "bbFilter 1.2.0+4713" "User Commands"
.SH NAME
bbFilter \- this is a part of mauveAligner package
.SH DESCRIPTION
\fBbbFilter\fR \fI<backbone file> <independent dist> <output file> <beast|gp> [<seq1> <seq2>...<seqN>]\fR
.br
seq index starts at 0.
.SH EXAMPLES
Example:
.IP
\fBbbFilter\fR my_alignment.backbone 50 my_feats.bin gp
.PP
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
.PP
Example 2:
.IP
\fBbbFilter\fR aln.backbone 100 feats.xml beast 0 1 2 5 6
.PP
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