Provided by: aegean_0.15.2+dfsg-2_amd64

**NAME**

gaeval - calculate coverage and intergrity scores for gene models based on transcript alignments

**SYNOPSIS**

gaeval[options]alignments.gff3genes.gff3[moregenes.gff3...]

**DESCRIPTION**

Basic options:-h|--help print this help message and exit-v|--version print version number and exit Weights for calculating integrity score (must add up to 1.0):-a|--alpha: DOUBLE introns confirmed, or % expected CDS length for single-exon genes; default is 0.6-b|--beta: DOUBLE exon coverage; default is 0.3-g|--gamma: DOUBLE % expected 5' UTR length; default is 0.05-e|--epsilon: DOUBLE % expected 3' UTR length; default is 0.05 Expected feature lengths for calculating integrity score:-c|--exp-cds: INT expected CDS length (in bp); default is 400-5|--exp-5putr: INT expected 5' UTR length; default is 200-3|--exp-3putr: INT expected 3' UTR length; default is 100