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Seeking Advice on Primer and Adapter Trimming for MiSeq Amplicon Sequencing Data Using Cutadapt
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1
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216
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August 3, 2026
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Cutadapt trim-paired with separate 5'/3' adapters retaining primers — is switching to linked adapters the correct fix?
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1
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44
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July 21, 2026
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Minimum length threshold in cutadapt for marker of variable length
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9
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147
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July 20, 2026
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High but variable sequence loss (32-68%) during DADA2 filtering with V3-V4 amplicons (MiSeq 600 cycles)
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2
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116
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April 9, 2026
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Problem with cache using qiime cutadapt
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8
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100
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March 30, 2026
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Q2-cutadapt add "--nextseq-trim" option
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3
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130
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February 27, 2026
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Possible bug in qiime cutadapt demux paired (2024.10)
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3
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102
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January 28, 2026
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Huge difference of DADA2 output with and without removing primers
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4
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129
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January 27, 2026
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qiime cutadapt does not have an untrimmed sequences output
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4
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151
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December 1, 2025
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ITS denoising truncation
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1
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71
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October 15, 2025
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Duplicate barcode error, but barcodes listed are not the same.
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6
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111
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August 19, 2025
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cutadapt outside of QIIME2
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1
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70
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August 4, 2025
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Inconsistent results with discard untrimmed reads in cutadapt
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6
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169
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July 10, 2025
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QIIME 2 Meta-Analysis of Rhizosphere Microbiome with Mixed V3-V4/V4 Data: Best Practices for Downstream Analysis
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13
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544
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April 17, 2025
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Analysing V4/V5 16S rRNA illumina Miseq paired-end reads.
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15
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467
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March 18, 2025
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Trimming Paired-End Sequences with cutadapt While Maintaining Pairing Integrity
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1
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95
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February 10, 2025
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Which position is best for trimming in a paired-end approach?
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10
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181
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January 24, 2025
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Comparing amplicon studies that use different primers
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6
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209
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November 20, 2024
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Trimming 5bp in QIIME2 2024.5 Amplicon
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3
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57
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November 14, 2024
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Error messages after cutadapt, but got trimmed files.
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4
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220
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November 7, 2024
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Cut adapt results in empty files
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3
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174
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October 18, 2024
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One vs two adaptor sequences using cutadapt
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4
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115
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September 27, 2024
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QIIME2 Demultiplexing Sequence
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6
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235
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September 3, 2024
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V3-V4 16s - variable size after merging
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6
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288
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August 5, 2024
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problem with cutadapt trim-single
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3
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151
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July 2, 2024
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Removal of Illumina Adapters
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1
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209
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May 30, 2024
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Error during deblur process
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7
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331
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May 11, 2024
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Cutadapt - trimming adaptor and primer sequences
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2
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246
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May 11, 2024
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Missing plugins to load Artifact to run cut adapt
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1
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151
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May 7, 2024
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Primer show up again after removal using cutadapt in qiime2 DADA2
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9
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432
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May 6, 2024
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