.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.46.4.
.TH PMRNA "1" "January 2016" "pmrna 0.15.1" "User Commands"
.SH NAME
pmrna \- filter out all but the primary isoform from each gene of the input
.SH SYNOPSIS
.B pmrna
[\fI\,options\/\fR] \fI\,< annot.gff3 > new.gff3\/\fR
.SH DESCRIPTION
Options:
.TP
\fB\-h\fR|\-\-help
print this help message and exit
.TP
\fB\-i\fR|\-\-introns
flag indicating that introns are declared explicitly
and do not need to be inferred from exon features;
default is to infer introns
.TP
\fB\-l\fR|\-\-locus
report a single representative mRNA for each locus
instead of each gene
.TP
\fB\-m\fR|\-\-map: FILE
write each gene/mRNA mapping to the specified file
.TP
\fB\-p\fR|\-\-pseudogenes
disable pseudogene detection and correction