SIM2GFF
SIM2GFF
Section: User Commands (1) Updated: Mon, 21 Mar 2005 21:44:15 -0300 Local index
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NAME
sim2gff - Converts SIM file into GFF formatted records
SYNOPSIS
sim2gff
[-frxyHh] sim_file > gff_file
DESCRIPTION
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).
OPTIONS
- -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.
EXIT STATUS
The following perl-like exit status are returned:
0
Error
1
Successful completion
SEE ALSO
ali2gff(1),
blat2gff(1),
gff2aplot(1),
parseblast(1).
AUTHOR
sim2gff was written by Thomas Wiehe <twiehe@imb-jena.de>.
This manual page was written by Nelson A. de Oliveira <naoliv@gmail.com>,
for the Debian project (but may be used by others).
Index
- NAME
-
- SYNOPSIS
-
- DESCRIPTION
-
- OPTIONS
-
- EXIT STATUS
-
- SEE ALSO
-
- AUTHOR
-
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Time: 21:25:53 GMT, April 16, 2011