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ali2gff - Module to translate a MUMmer output files into gff formatted output.

ALI2GFF(1) General Commands Manual ALI2GFF(1)

NAME

ali2gff - Module to translate a MUMmer output files into gff formatted output.

SYNOPSIS

ali2gff [-r] [-t <.|0|1|2>] [-x <name>] [-y <name>] [-H] [-f] [-h] <MUMmer_output_file>
 

OPTIONS

-h, --help
Show summary of options.
-r
Interchange the order of sequences (sequence 1 on y-axis, sequence 2 on x-axis).
-t <.|0|1|2>
Put label 'frame' in gff output.
-x <name>
Specify the species name for species1 (default: "Seq1").
-y <name>
Specify the species name for species2 (default: "Seq2").
-i
Ignore full sequence identities.
-f
Write output to file.

SEE ALSO

blat2gff(1), gff2aplot(1), parseblast(1), sim2gff(1).
 

AUTHOR

ali2gff was written by Steffi Gebauer-Jung.
This manual page was written by Nelson A. de Oliveira <naoliv@gmail.com>, for the Debian project (but may be used by others).
Mon, 21 Mar 2005 21:44:15 -0300 Debian Sid