GT-MGTH(1)

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>.