Christopher Fields > BioPerl-1.6.923 > longorf.pl

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NAME ^

longorf.pl - perl script to find the longest ORF of a sequence

SYNOPSIS ^

% longorf.pl [-h] [-n] [-v] [-g] [-w printwidth] [-f seqformat] -i seqfile

DESCRIPTION ^

This script will examine a set of nucleotide sequences and determine the longest ORF in each sequence. ORFs may start at the canonical ATG or at the beginning of the sequence if the notstrict option is chosen. The script will output a list of the longest ORF lengths, starts, ends and strands with the ORF and amino acid sequence if the verbose option is chosen. A histogram of the longest ORFs in the input set may be printed by choosing the graph option.

FEEDBACK ^

This script is not supported by anyone, but requests can be made to the author.

AUTHOR - Dan Kortschak <kortschak@rsbs.anu.spanner.edu.au> ^

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