Latest General Discussion topics

Topic	Replies	Views	Activity
Frequent Questions and "Best of the QIIME 2 Forum" best-of-the-forum The following is a list of frequently asked questions on the forum, with answers, to serve as a point of reference for forum users to quickly find answers, or for forum users and moderators to use as a reference when hel…	2	8120	February 27, 2020
About the General Discussion category	1	1002	March 13, 2023
manifest file issue while doing 16s rna for small read in qiime2 import	2	16	February 12, 2026
Meta-analysis of multiple 16s datasets with different regions best practice?	6	63	February 10, 2026
Fungal primer choice avoiding plant amplification its	2	31	February 8, 2026
Hyperlink problem in gut-to-soil axis tutorial	7	40	February 6, 2026
Many species have identical ITS fungal reference sequences in the ITS RefSeq database	1	20	February 6, 2026
Phylogenetic tree construction for ASV-based amplicon data	1	27	February 4, 2026
Best practice to identify mitochondria and chloroplasts using Greengenes2 2024.09 taxonomy	2	30	February 4, 2026
F-metric score in naive bayes classification of self-downloaded HROM microbiome database classifier	9	43	February 3, 2026
Integrating V3-V4 and V4 16S datasets for large-scale meta-analysis: Is Greengenes2 the optimal choice for cross-region alignment? dada2 , feature-classifier , taxonomy , queued	0	38	January 29, 2026
Alpha and Beta Diversity analysis using shotgun metagenomics data diversity , metagenomics	2	48	January 26, 2026
Comparing 16S and shotgun metagenomic data with greengenes2 metagenomics , greengenes2	4	101	January 20, 2026
bivalve gut microbiota, water and soil samples What OTU cluster? otus , closed-reference	11	78	January 19, 2026
Advice in best practice for handling multiple sequencing runs and subset analyses in QIIME 2 (DADA2) dada2 , feature-table	2	31	January 16, 2026
Quickstart not working in Safari, but works on Chrome	5	37	January 14, 2026
Seeking advice for a Thesis project	5	105	January 12, 2026
How to deal with possible cross-contamination by a crucial bacteria filtering , contaminant , decontam	2	46	February 8, 2026
How to use qiime tools make-report (qiime2-amplicon-2025.10)	8	93	December 22, 2025
Diversity analysis interpretation	1	37	December 17, 2025
Remove Unassigned ASV for Tree construction phylogeny	3	36	December 16, 2025
Seeking alternatives to rarefaction for Alpha diversity analysis	8	119	December 11, 2025
Guidance on Merging and Handling Samples from Multiple Sequencing Runs	5	326	December 2, 2025
Lost files - rep-seq already filtered, need combined	1	15	November 25, 2025
priors in qiime2-dada2 dada2	4	250	November 18, 2025
How to find the genus level from bacteria with from 16s method	4	66	November 18, 2025
Phylogenetic tree: Reconstruct vs. Prune - When to? tree	6	106	November 15, 2025
DADA2 -- denoise dada2	2	61	November 7, 2025
MOSHPIT: removing contaminant reads from metagenome data moshpit	12	372	November 6, 2025
code “E.AniM” in KO	2	50	November 3, 2025

Frequent Questions and "Best of the QIIME 2 Forum"

best-of-the-forum

The following is a list of frequently asked questions on the forum, with answers, to serve as a point of reference for forum users to quickly find answers, or for forum users and moderators to use as a reference when hel…