Hello,
I have just finished running cufflinks on my dataset and I would like to know how to calculate how much the coding regions of the cufflinks transcript models extended past the known annotated reference model. This will shed light on the 5' and 3' UTR's as well as refine the previous annotation. I performed a cuffcompare analysis on my dataset, but as of now I do not think the class codes from cuffcompare cover this.
Does anyone has any ideas, comments, or suggestions on how to quantify this?
Thanks,
I have just finished running cufflinks on my dataset and I would like to know how to calculate how much the coding regions of the cufflinks transcript models extended past the known annotated reference model. This will shed light on the 5' and 3' UTR's as well as refine the previous annotation. I performed a cuffcompare analysis on my dataset, but as of now I do not think the class codes from cuffcompare cover this.
Does anyone has any ideas, comments, or suggestions on how to quantify this?
Thanks,
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