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Old 10-26-2017, 11:53 AM   #13
thermophile
Senior Member
 
Location: CT

Join Date: Apr 2015
Posts: 233
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The poor pf and wrong indices are 2 different issues. Bad libraries shouldn't lead to poor pf unless you were loosing all of a certain type of libraries and ended up with just low diversity? Might check your thumbnails to see if you were overclustered (which can still be the users fault if their libraries are much small than expected).

I've attempted to figure out the correct indices when users have told me the wrong ones and generally haven't been able to do it. But I haven't tried that hard.
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Microbial ecologist, running a sequencing core. I have lots of strong opinions on how to survey communities, pretty sure some are even correct.
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