I am working on a meta-analysis of public 18S rRNA amplicon datasets, mostly downloading the raw sequences from NCBI SRA. I want to use DADA2 within QIIME2 for denoising and I understand that the error model necessitates that reads from different sequencing runs are run through DADA2 separately. However, for many of the datasets I am working with there is no information about which samples come from the same sequencing run. My question is, is there any chance I can get away with using DADA2 with all of the .fastq files from a single SRA study/publication together? Otherwise I am not sure I will be able to use this approach. Thank you!