A simple program to parse GFF files and produce some output.
Usage:
inputFile=... specify gff3 input file (required)
out=/tmp/ specify an output directory (optional)
-noqc provide this flag to suppress QC output
-geneTrack provide this flag to generate a serialized GeneTrack for Genvisis
-genesXln provide this flag to generate an xln file of genes
-bedExons provide this flag to generate a bed file of exons
-bedIntrons provide this flag to generate a bed file of introns
-bedAll provide this flag to generate three bed files. One of exons, one of introns, and one containing both.