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Old 10-28-2016, 09:25 AM   #2
Location: Bay Area

Join Date: Aug 2011
Posts: 30


Yes you are correct in your interpretation. Best way to proceed to visualizing isoforms:

-- take the HQ isoform output (polished_high_qv_consensus_isoforms.fastq) and align it to your genome. You can use a collapse script to remove some redundancy (there will be a little):

-- to compare it with existing annotation, use matchAnnot (

there's also a lightweight script that can parse matchAnnot results for you:

I don't check seqanswers often enough, so apologies for the late response.

Please consider joining the public Iso-Seq google group. Response from there is usually much faster. You can certainly post on both Seqanswers and Google Group at the same time.!forum/smrt_isoseq
Magdoll is offline   Reply With Quote