How to use qiime for single and paired from different sequencing platforms with different read length?

General Discussion
1

I was trying to run QIIME for my total four paired end and single end sequence data. The 2 paired end sequence is from the illumina which is of around 250 read length. And the single read sequence data is from Ion torrent in which one is having around 600 read length and other single read sequence is around 150 read length.

So how can I analyze and combine all these data for comparison? Also, whether the truncation for all the reads at 150 bp will work here?

2

Hi @Sreekutti,

Welcome to the :qiime2: forum!

The answer to this question depends a lot on some additional details. I'm assuming the goal is to harmonize the data across the different sources. Do the different sequencing platforms represent different data sets amplified with different primper pairs? What is your broader goal?

Best,
Justine

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