sim2gff (1)

sim2gff [-frxyHh] sim_file > gff_file

This manual page documents briefly the sim2gff command.

sim2gff is a program written in Perl that converts SIM file into GFF formatted records (for use with gff2aplot and gff2javaplot).

-h, --help

Show summary of options.

-f

Output is written to a file named <sim_file>.gff.

-r

Interchange the order of sequences (Seq1 on y-axis, Seq2 on x-axis).

-x <name>

Specify the species name for species1 (default: "Seq1").

-y <name>

Specify the species name for species2 (default: "Seq2").

-H

Use the fasta file headers for species labels.

The following perl-like exit status are returned:

0 Error

1 Successful completion

ali2gff(1), blat2gff(1), gff2aplot(1), parseblast(1).

sim2gff was written by Thomas Wiehe <[email protected]>.

This manual page was written by Nelson A. de Oliveira <[email protected]>, for the Debian project (but may be used by others).