Was able to get CLC to recognize Annotated oyster genome when converting mRNA only GFF name to gene.
-3 in AltSPlice folder
Also took full gff and converted "mRNA" to "gene" and left "CDS" as is (-4)
Both miss exon info
will change CDS -> exon (-5)
FINALLY!
GFF has to annotated as gene and mRNA
Running Gil on v9_90
All data @
http://eagle.fish.washington.edu/cnidarian/AltSpliceCLC_030613.zip
Transcript Level Expression
