Sequencing analysis of variants in our Puerto Rican ZIKV stock is now detailed here: https://zika.labkey.com/announcements/OConnor/thread.view?rowId=112 …
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can be consistently biased between replicates - need spike-in controls to verify. It could be
Agreed. Replicates unfortunately won't help with bias (major issue).
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We use varscan with --strandfilter to avoid strand bias. Insufficient?
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again - we are not saying that your data is wrong, just that there are many variables to test
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