Hi @wym199633,
I suspect that you should be able to trick QIIME 2 to import the reverse reads as forward reads by using the manifest format approach. That is, just set the direction
column for these reads to forward
for all your R2 reads, and do not include your R1 reads.
I can not speak to any sequence data validation steps that occur via this or other import approaches. Perhaps @ebolyen, @thermokarst, or someone else can provide some insight on weather this will work, or if there is a more appropriate option.
-Best
-Mike