FMT tutorial: denoise-single vs paired

General Discussion
1

In the FMT tutorial, denoising is done with DADA2 denoise-single.

We’ll begin by performing quality control on the demultiplexed sequences using DADA2, but this time we’ll run the denoise-single command on each set of demultiplexed sequences individually.

However, in the original paper it says:

A 16S rRNA library for MiSeq Illumina platform was prepared according to the protocol from Earth Microbiome Project. The barcoded primer set 515f-806r were used for pair-ended sequencing to target the 16S rRNA V4 region

EDIT: The raw, unpaired fastq files are in the starting node of processing network:
image

I looked up the study in Qiita, but can't find the paired-end data anywhere.
Does anyone have the paired end data for this project?

Does anyone know why only the forward reads are used in the official FMT tutorial?

2

The dada2 denoise-single was used because the reads were 2 x 150 and using only forward reads avoids possibly losing reads due to merging.

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