NAME

       gt-mgth - Metagenomethreader, for predicting genes in metagenomeprojects.

SYNOPSIS

       gt mgth [option ...] XML-File Query-FASTA-File Hit-FASTA-File

OPTIONS

       -s
           score for synonymic base exchanges (default: 1.00)

       -n
           score for non-synonymic base exchanges (default: -1.00)

       -b
           score for blast-hit-end within query sequence (default: -10.00)

       -q
           score for stop-codon within querysequence (default: -2.00)

       -h
           score for stop-codon within hitsequence (default: -5.00)

       -l
           score for leaving a gene on forward/reverse strand or enter a gene on forward/reverse strand
           (default: -2.00)

       -p
           max. span between coding-regions resume as one prediction (default: 400.00)

       -f
           max. span between coding-regions in different reading frames resume as coding-regions in the optimal
           reading-frame (default: 200.00)

       -c
           db-name for fcgi-db (default: nucleotide)

       -o
           name for resulting output-file (default: output)

       -k
           name for the Hit-Sequence-DB (default: nucleotide database)

       -t
           true or false if a Hit-FASTA-File exist (default: no)

       -r
           format of the output-file (default: 1)

       -a
           minimum length of the as-sequence (default: 15)

       -d
           minimum percent-value for hit-statistic-output (default: 0.00)

       -e
           use of alternative start-codons (default: 1)

       -m
           search for homology (default: no)

       -g
           testmodus, output without creating date (default: no)

       -x
           extend the EGTs to max (default: no)

       -help
           display help and exit

       -version
           display version information and exit

DESCRIPTION

       For detailed information, please refer to the manual of mgth.

AUTHOR

       Report bugs to <gt-users@genometools.org>.

                                                   10/07/2012                                         GT-MGTH(1)