| PacBio ITS workflow - some questions | | 4 | 144 | Wed Sep 09 2026 |
| Very low percentage of merged reads in DADA2 with 16S V4, 2×150 bp paired-end sequencing | | 3 | 72 | Fri Aug 28 2026 |
| Why are my reads filtered out (98%) when quality seems okay? | | 6 | 125 | Thu Aug 20 2026 |
| Why truncate with dada2 when ITSxpress is an option? | | 16 | 287 | Mon Aug 17 2026 |
| Request: DADA2 denoise-ccs without --p-front parameter | | 2 | 68 | Tue Aug 04 2026 |
| Is my truncation parameter exploration sufficient, and is my interpretation correct? | | 1 | 63 | Tue Jul 28 2026 |
| Losing reads at DADA2 Merge step 30% of my samples lost over 50% - I have tried multiple steps to fix- please help | | 1 | 52 | Tue Jul 21 2026 |
| Can DADA2 be used with nearly uniform Q38 quality scores? | | 2 | 64 | Tue Jul 21 2026 |
| Sequencing platform fully confounded with study period: MiSeq vs NextSeq 2000 (16S rRNA V3-V4) | | 3 | 114 | Tue Jul 07 2026 |
| QIIME 2 processing of MiSeq i100 data with constant quality scores | | 3 | 164 | Mon Jun 08 2026 |
| Running DADA2 on pre-processed data | | 7 | 175 | Wed Jun 03 2026 |
| Query about false read merging or no read merging | | 1 | 49 | Tue May 26 2026 |
| Merging NGS with TGS? | | 3 | 80 | Wed May 20 2026 |
| Under the hood of the "Moving Pictures" tutorial | | 0 | 200 | Wed May 13 2026 |
| sequence alignment | | 5 | 85 | Mon May 11 2026 |
| An error was encountered while running DADA2 in R (return code 1), inspect stdout and stderr to learn more | | 10 | 151 | Fri May 08 2026 |
| Help - DADA2 microbiome analysis | | 3 | 90 | Mon May 04 2026 |
| Qiime version and singletons | | 3 | 102 | Mon Apr 27 2026 |
| High number of unique sequences in PacBio full-length 16S CCS data with DADA2 | | 2 | 171 | Fri Apr 24 2026 |
| Low overlap due to poor reverse read quality in 2×300 bp V3–V4 amplicon sequencing (DADA2) | | 1 | 94 | Mon Apr 13 2026 |
| High but variable sequence loss (32-68%) during DADA2 filtering with V3-V4 amplicons (MiSeq 600 cycles) | | 2 | 125 | Thu Apr 09 2026 |
| Inadequate overlap for V3-V4 (paired-end) due to quality drop | | 5 | 145 | Mon Mar 09 2026 |
| Integrating V3-V4 and V4 16S datasets for large-scale meta-analysis: Is Greengenes2 the optimal choice for cross-region alignment? | | 1 | 187 | Fri Mar 06 2026 |
| Too many elements for DADA2 - denoise in batches? | | 6 | 162 | Wed Mar 04 2026 |
| Analysis with DADA2... Merge Read Length | | 1 | 71 | Wed Mar 04 2026 |
| denoise failure | | 5 | 99 | Tue Feb 24 2026 |
| Huge difference of DADA2 output with and without removing primers | | 4 | 132 | Tue Jan 27 2026 |
| Advice in best practice for handling multiple sequencing runs and subset analyses in QIIME 2 (DADA2) | | 2 | 159 | Fri Jan 16 2026 |
| pair ended demultiplexed qza file causing strange error. | | 1 | 75 | Sun Dec 28 2025 |
| High read loss due to artifacts and chimera after denoising 16S V3-V4 paired-end reads | | 1 | 99 | Wed Dec 17 2025 |
