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Alpha and Beta Diversity analysis using shotgun metagenomics data
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2
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251
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January 26, 2026
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Comparing 16S and shotgun metagenomic data with greengenes2
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3
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251
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January 20, 2026
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bivalve gut microbiota, water and soil samples What OTU cluster?
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11
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203
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January 19, 2026
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Advice in best practice for handling multiple sequencing runs and subset analyses in QIIME 2 (DADA2)
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2
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185
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January 16, 2026
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Quickstart not working in Safari, but works on Chrome
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4
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98
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January 14, 2026
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Seeking advice for a Thesis project
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3
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176
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January 12, 2026
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How to deal with possible cross-contamination by a crucial bacteria
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1
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87
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January 8, 2026
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Diversity analysis interpretation
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1
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79
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December 17, 2025
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Remove Unassigned ASV for Tree construction
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3
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92
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December 16, 2025
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Seeking alternatives to rarefaction for Alpha diversity analysis
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8
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204
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December 11, 2025
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Guidance on Merging and Handling Samples from Multiple Sequencing Runs
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5
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619
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December 2, 2025
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Lost files - rep-seq already filtered, need combined
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1
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38
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November 25, 2025
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priors in qiime2-dada2
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3
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284
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April 25, 2023
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How to find the genus level from bacteria with from 16s method
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4
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153
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November 18, 2025
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Phylogenetic tree: Reconstruct vs. Prune - When to?
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6
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223
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November 15, 2025
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DADA2 -- denoise
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2
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95
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November 7, 2025
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MOSHPIT: removing contaminant reads from metagenome data
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11
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655
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August 18, 2025
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code “E.AniM” in KO
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2
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80
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November 3, 2025
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Filtering all Metazoa and bacteria out of my sample
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1
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78
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October 23, 2025
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PERMANOVA results significant, but differential abundance results detect 0 significantly different ASVs
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3
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334
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October 20, 2025
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Interpreting KEGG vs MetaCyc pathways in 16S (PICRUSt2) functional prediction
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1
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405
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October 18, 2025
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Converting 16S V3–V4 ASV reads to absolute copy numbers (qPCR / spike-in calibration?)
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3
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159
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October 9, 2025
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How to test for dissimilarity for my samples
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1
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286
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December 22, 2022
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Rareifying ASV reads for Alpha and Beta diversity analysis
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1
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97
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September 26, 2025
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Ancom-BC2 analysis along time series
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4
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234
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September 24, 2025
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Training a classifer for 18S and CO1 edna
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2
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163
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September 21, 2025
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Axis value percentages have no meaning in PCoA ?
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5
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306
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September 20, 2025
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Why is non-chimera read count often referred to as sequencing depth in 16S rRNA analysis?
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4
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276
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September 18, 2025
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Percentage of reads discarded after running DADA2 on NextSeq data
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1
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96
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August 25, 2025
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Batch effects - Normalizing sequencing runs with different sequence counts
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3
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122
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August 20, 2025
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