# \#qiime2 **URL:** https://forum.qiime2.org/tag/qiime2/263.md [Latest](https://forum.qiime2.org/latest.md) · [Categories](https://forum.qiime2.org/categories.md) · [Tags](https://forum.qiime2.org/tags.md) --- ## [qiime2 2024.10: slow alpha rarefaction](https://forum.qiime2.org/t/qiime2-2024-10-slow-alpha-rarefaction/34287)
**Author:** [@mart\_rach](https://forum.qiime2.org/u/mart_rach)\ **Replies:** 3\ **Last updated:** [August 14, 2026, 8:00pm UTC](https://forum.qiime2.org/t/qiime2-2024-10-slow-alpha-rarefaction/34287 "2026-08-14T20:00:14Z")
Hi everyone, I’m having an issue with qiime diversity alpha-rarefaction. I ran the same command on both my local machine and a slurm cluster. The job took only about 1.5 hours to finish on my local machine, while it too… --- ## [Help - DADA2 microbiome analysis](https://forum.qiime2.org/t/help-dada2-microbiome-analysis/34161)
**Author:** [@Ana\_Lucia\_Arevalo\_Fi](https://forum.qiime2.org/u/Ana_Lucia_Arevalo_Fi)\ **Replies:** 3\ **Last updated:** [May 4, 2026, 7:11pm UTC](https://forum.qiime2.org/t/help-dada2-microbiome-analysis/34161 "2026-05-04T19:11:55Z")
Hi everyone, I’m currently working on a 16S soil microbiome dataset with ~140 samples using QIIME 2 (qiime2-amplicon-2025.7). During the DADA2 denoising step, about 25% of my samples end up with 0 reads after filtering. … --- ## [Chimera removal dilemma in 16S V3–V4: necessary when using Kraken2/Bracken?](https://forum.qiime2.org/t/chimera-removal-dilemma-in-16s-v3-v4-necessary-when-using-kraken2-bracken/33679)
**Author:** [@christopherwilliamle](https://forum.qiime2.org/u/christopherwilliamle)\ **Replies:** 8\ **Last updated:** [September 26, 2025, 10:22pm UTC](https://forum.qiime2.org/t/chimera-removal-dilemma-in-16s-v3-v4-necessary-when-using-kraken2-bracken/33679 "2025-09-26T22:22:06Z")
Hi everyone, I would like to know how you usually deal with chimeras in 16S data, given that Kraken2 does not explicitly remove them (and, as far as I understand, it might actually handle them relatively well). Here’s … --- ## [How to install QIIME2 through docker? Did you met this issue?](https://forum.qiime2.org/t/how-to-install-qiime2-through-docker-did-you-met-this-issue/33496)
**Author:** [@yangyue](https://forum.qiime2.org/u/yangyue)\ **Replies:** 10\ **Last updated:** [July 31, 2025, 6:26pm UTC](https://forum.qiime2.org/t/how-to-install-qiime2-through-docker-did-you-met-this-issue/33496 "2025-07-31T18:26:27Z")
I am installing QIIME2 by many ways, all of them has a little success rate, I think something has been wrong with this developing platform, so I tried docker to install it. Following the instructions by web pages, I jus… --- ## [Who has successfully installed newer version(s) after the QIIME2-2022.2 ？](https://forum.qiime2.org/t/who-has-successfully-installed-newer-version-s-after-the-qiime2-2022-2/33501)
**Author:** [@yangyue](https://forum.qiime2.org/u/yangyue)\ **Replies:** 8\ **Last updated:** [July 28, 2025, 5:26pm UTC](https://forum.qiime2.org/t/who-has-successfully-installed-newer-version-s-after-the-qiime2-2022-2/33501 "2025-07-28T17:26:20Z")
I only want to ask you a question, because I can't install any verison of qiime2 successfully by just one attempt through using the default command of any installation way (VritualBox, WSL or Docker). :joy: --- ## [ITS, 18S, 23S and 28S new reference databases to use in QIIME2](https://forum.qiime2.org/t/its-18s-23s-and-28s-new-reference-databases-to-use-in-qiime2/33018)
**Author:** [@A\_Munoz](https://forum.qiime2.org/u/A_Munoz)\ **Replies:** 0\ **Last updated:** [April 17, 2025, 1:37pm UTC](https://forum.qiime2.org/t/its-18s-23s-and-28s-new-reference-databases-to-use-in-qiime2/33018 "2025-04-17T13:37:07Z")
MIMt database has grown and now it includes databases for other markers like ITS, 18S, 23S and 28S to the previous 16S already in use. All the databases have two versions, one with only curated sequences from Target Loc… --- ## [QIIME 2 Meta-Analysis of Rhizosphere Microbiome with Mixed V3-V4/V4 Data: Best Practices for Downstream Analysis](https://forum.qiime2.org/t/qiime-2-meta-analysis-of-rhizosphere-microbiome-with-mixed-v3-v4-v4-data-best-practices-for-downstream-analysis/32839)
**Author:** [@John\_Kim\_Aligato](https://forum.qiime2.org/u/John_Kim_Aligato)\ **Replies:** 13\ **Last updated:** [April 17, 2025, 7:15am UTC](https://forum.qiime2.org/t/qiime-2-meta-analysis-of-rhizosphere-microbiome-with-mixed-v3-v4-v4-data-best-practices-for-downstream-analysis/32839 "2025-04-17T07:15:40Z")
Dear QIIME 2 Community, I hope this message finds you well. We are currently doing a meta-analysis of rhizosphere microbiome data from banana plants using QIIME 2 and are seeking guidance on our current workflow and bes… --- ## [DADA2 Filtering Error - Failed to Write Record](https://forum.qiime2.org/t/dada2-filtering-error-failed-to-write-record/32456)
**Author:** [@megan.justice](https://forum.qiime2.org/u/megan.justice)\ **Replies:** 17\ **Last updated:** [March 3, 2025, 3:39pm UTC](https://forum.qiime2.org/t/dada2-filtering-error-failed-to-write-record/32456 "2025-03-03T15:39:01Z")
Hello, all! Apologies for any errors in this post as I am new to the forum and qiime2. I am currently running qiime2-amplicon-2024.10 using conda. Here is my code thus far: # Import Data qiime tools import\\ --… --- ## [Problems installing old qiime2 version for mmvec plug-in usage](https://forum.qiime2.org/t/problems-installing-old-qiime2-version-for-mmvec-plug-in-usage/31924)
**Author:** [@natalie.melendez](https://forum.qiime2.org/u/natalie.melendez)\ **Replies:** 5\ **Last updated:** [November 19, 2024, 6:07pm UTC](https://forum.qiime2.org/t/problems-installing-old-qiime2-version-for-mmvec-plug-in-usage/31924 "2024-11-19T18:07:56Z")
Hi, I am wanting to install the MMvec plugin in qiime2 to perform microbial-metabolite interactions. The MMvec github says that the plug in is only compatible with qiime2 environments 2020.6 or before. Hence I have been… --- ## [One vs two adaptor sequences using cutadapt](https://forum.qiime2.org/t/one-vs-two-adaptor-sequences-using-cutadapt/30628)
**Author:** [@Pratyusha\_Patidar](https://forum.qiime2.org/u/Pratyusha_Patidar)\ **Replies:** 4\ **Last updated:** [September 27, 2024, 4:09pm UTC](https://forum.qiime2.org/t/one-vs-two-adaptor-sequences-using-cutadapt/30628 "2024-09-27T16:09:30Z")
For a paired end data, i have one adaptor sequence in the sample sheet as per the kit. However, cutadapt trimming step requires me to provide 2 adaptor sequences (--p-adaptor-f and --p-adaptor-r). How to provide 2 adapt… --- ## [Error using qiime2 environment since trying to install q2\_fondue](https://forum.qiime2.org/t/error-using-qiime2-environment-since-trying-to-install-q2-fondue/30205)
**Author:** [@Cecile](https://forum.qiime2.org/u/Cecile)\ **Replies:** 6\ **Last updated:** [May 15, 2024, 12:42pm UTC](https://forum.qiime2.org/t/error-using-qiime2-environment-since-trying-to-install-q2-fondue/30205 "2024-05-15T12:42:34Z")
Hello, I am currently running QIIME 2 (2022.8) on mac os terminal (apple M1 chip). I have install and create the environment last years using conda (with the CONDA\_SUBDIR=osx-64 command line) and everything worked fine. … --- ## [qiime2-shotgun-2024.2 - Error: QIIME 2 has no plugin/command named 'dada2'](https://forum.qiime2.org/t/qiime2-shotgun-2024-2-error-qiime-2-has-no-plugin-command-named-dada2/30289)
**Author:** [@Cecile](https://forum.qiime2.org/u/Cecile)\ **Replies:** 1\ **Last updated:** [May 22, 2024, 7:47am UTC](https://forum.qiime2.org/t/qiime2-shotgun-2024-2-error-qiime-2-has-no-plugin-command-named-dada2/30289 "2024-05-22T07:47:14Z")
Hello! I am using the 2024.2 version of QIIME 2 (downloaded with conda following the instruction for Mac M1 chip). qiime info System versions Python version: 3.8.18 QIIME 2 release: 2024.2 QIIME 2 version: 2024.2.… --- ## [QIIME2 installation problem](https://forum.qiime2.org/t/qiime2-installation-problem/29832)
**Author:** [@adriansh](https://forum.qiime2.org/u/adriansh)\ **Replies:** 4\ **Last updated:** [April 9, 2024, 5:57pm UTC](https://forum.qiime2.org/t/qiime2-installation-problem/29832 "2024-04-09T17:57:14Z")
Hello everyone! I use ubuntu 23.10 and I tried to install QIIME2 Amplicon Distribution using Conda. I followed the installation guide and after 'conda env create -n qiime2-amplicon-2024.2 --file qiime2-amplicon-2024.2-… --- ## [Recommendations for installing older versions of QIIME 2](https://forum.qiime2.org/t/recommendations-for-installing-older-versions-of-qiime-2/28956)
**Author:** [@lizgehret](https://forum.qiime2.org/u/lizgehret)\ **Replies:** 0\ **Last updated:** [January 18, 2024, 10:18pm UTC](https://forum.qiime2.org/t/recommendations-for-installing-older-versions-of-qiime-2/28956 "2024-01-18T22:18:31Z")
While we recommend keeping your version of QIIME 2 up to date, we recognize that QIIME 2 users sometimes may wish to install older versions of QIIME 2 - whether that be to test/replicate behavior that existed within a pa… --- ## [qiime vsearch merge-pairs Missing option and Command not found](https://forum.qiime2.org/t/qiime-vsearch-merge-pairs-missing-option-and-command-not-found/29648)
**Author:** [@yangyang](https://forum.qiime2.org/u/yangyang)\ **Replies:** 6\ **Last updated:** [March 28, 2024, 1:42pm UTC](https://forum.qiime2.org/t/qiime-vsearch-merge-pairs-missing-option-and-command-not-found/29648 "2024-03-28T13:42:58Z")
hello, I'm using qiime vsearch merge-pairs to merge. When I tray to perform command with this line of code: #!/bin/bash #PBS -q batch #PBS -o merge.o #PBS -e merge.e source activate qiime2-amplicon-2024.2 cd /home/lib… --- ## [Understanding DADA2 parameters](https://forum.qiime2.org/t/understanding-dada2-parameters/29288)
**Author:** [@Anisur\_Rahman](https://forum.qiime2.org/u/Anisur_Rahman)\ **Replies:** 0\ **Last updated:** [February 17, 2024, 8:09pm UTC](https://forum.qiime2.org/t/understanding-dada2-parameters/29288 "2024-02-17T20:09:31Z")
Hi, I am a QIIME2 user. Currently, I am making some educational content on microbiome analysis mainly focusing on QIIME2. I found it always confusing to choose DADA2 parameters. And there are a lot of questions in the q… --- ## [How to create taxa barplot using SRA toolkit on Mac](https://forum.qiime2.org/t/how-to-create-taxa-barplot-using-sra-toolkit-on-mac/29273)
**Author:** [@arundhati\_brasilense](https://forum.qiime2.org/u/arundhati_brasilense)\ **Replies:** 2\ **Last updated:** [February 16, 2024, 4:21pm UTC](https://forum.qiime2.org/t/how-to-create-taxa-barplot-using-sra-toolkit-on-mac/29273 "2024-02-16T16:21:40Z")
Hello, I am trying to generate a taxa barplot with Qiime2 using 16s rRNA data from NCBI with a macArm64 processor. How exactly would I be able to proceed since using prefetch with the NCBI accession itself isn't working … --- ## [qiime vsearch cluster-features-open-reference issue](https://forum.qiime2.org/t/qiime-vsearch-cluster-features-open-reference-issue/29131)
**Author:** [@devenderarora](https://forum.qiime2.org/u/devenderarora)\ **Replies:** 11\ **Last updated:** [February 15, 2024, 6:23pm UTC](https://forum.qiime2.org/t/qiime-vsearch-cluster-features-open-reference-issue/29131 "2024-02-15T18:23:19Z")
Hello Qiime members, I am trying to run "cluster-features-open-reference" for diversity analysis. We would like to run differential abundance analysis on OTU corresponding to denovo ref-sequence but there is no option t…