# \#barplot **URL:** https://forum.qiime2.org/tag/barplot/121.md [Latest](https://forum.qiime2.org/latest.md) · [Categories](https://forum.qiime2.org/categories.md) · [Tags](https://forum.qiime2.org/tags.md) --- ## [Error when using qiime taxa barplot after fragment-insertion](https://forum.qiime2.org/t/error-when-using-qiime-taxa-barplot-after-fragment-insertion/33481)
**Author:** [@Julio](https://forum.qiime2.org/u/Julio)\ **Replies:** 8\ **Last updated:** [August 13, 2025, 9:43am UTC](https://forum.qiime2.org/t/error-when-using-qiime-taxa-barplot-after-fragment-insertion/33481 "2025-08-13T09:43:04Z")
Hi everyone, I used fragment-insertion sepp to insert some sequences to a reference tree. After that, I used fragment-insertion filter-features to filter my taxonomic table and used fragment-insertion classify-otus-expe… --- ## [how to select samples using stacked barplot](https://forum.qiime2.org/t/how-to-select-samples-using-stacked-barplot/33106)
**Author:** [@Youngtae\_Won](https://forum.qiime2.org/u/Youngtae_Won)\ **Replies:** 2\ **Last updated:** [May 7, 2025, 6:51pm UTC](https://forum.qiime2.org/t/how-to-select-samples-using-stacked-barplot/33106 "2025-05-07T18:51:05Z")
Hello everyone, As a beginner in microbiome research, I have a question for those of you with more experience in this field. Before conducting shotgun sequencing, we aimed to determine which samples would be most sui… --- ## [Problem with vizualization of SSU in bar plot](https://forum.qiime2.org/t/problem-with-vizualization-of-ssu-in-bar-plot/32053)
**Author:** [@jko](https://forum.qiime2.org/u/jko)\ **Replies:** 7\ **Last updated:** [December 14, 2024, 5:20pm UTC](https://forum.qiime2.org/t/problem-with-vizualization-of-ssu-in-bar-plot/32053 "2024-12-14T17:20:44Z")
Hello, I have a problem with silva-138.1-ssu-nr99-classifier.qza Finally more RAM in machine let me install this silva, but I have new complications with them. I get data in tables and bar plots in only form: d\_Bacter… --- ## [Eukaryotes (fungi; p\_\_Basidiomycota) in the taxa bar plots of 16S rRNA data](https://forum.qiime2.org/t/eukaryotes-fungi-p-basidiomycota-in-the-taxa-bar-plots-of-16s-rrna-data/31936)
**Author:** [@Irshad](https://forum.qiime2.org/u/Irshad)\ **Replies:** 4\ **Last updated:** [December 3, 2024, 3:21pm UTC](https://forum.qiime2.org/t/eukaryotes-fungi-p-basidiomycota-in-the-taxa-bar-plots-of-16s-rrna-data/31936 "2024-12-03T15:21:54Z")
I was not expecting Eukaryotes in my taxa bar plots, however, they appear in many samples. What should I do to improve these plots? Could this be due to the classifier or pre-dada2 steps such as cutadapt or mixed o… --- ## [Barplot sample order after collapsing](https://forum.qiime2.org/t/barplot-sample-order-after-collapsing/31195)
**Author:** [@elina2410](https://forum.qiime2.org/u/elina2410)\ **Replies:** 2\ **Last updated:** [August 21, 2024, 6:57am UTC](https://forum.qiime2.org/t/barplot-sample-order-after-collapsing/31195 "2024-08-21T06:57:47Z")
Hi, I grouped my samples according to the combine column. I wanted also control group to be first on x-axis so I added "." in the begining e.g. ".control.." And obtained this barplot: It seems like samples are rand… --- ## [Exporting barplot to .qzv from python API](https://forum.qiime2.org/t/exporting-barplot-to-qzv-from-python-api/29871)
**Author:** [@sklasek](https://forum.qiime2.org/u/sklasek)\ **Replies:** 3\ **Last updated:** [April 12, 2024, 7:40pm UTC](https://forum.qiime2.org/t/exporting-barplot-to-qzv-from-python-api/29871 "2024-04-12T19:40:25Z")
Hello, I'm a new qiime user trying to make and view a taxonomy barplot within the python API in a jupyter notebook. I've imported FeatureTable\[Frequency\] and featureData\[Taxonomy\] objects and created a barplot with them… --- ## [Generate taxa-stacked bar plots](https://forum.qiime2.org/t/generate-taxa-stacked-bar-plots/29181)
**Author:** [@smashha](https://forum.qiime2.org/u/smashha)\ **Replies:** 3\ **Last updated:** [February 12, 2024, 5:50pm UTC](https://forum.qiime2.org/t/generate-taxa-stacked-bar-plots/29181 "2024-02-12T17:50:12Z")
Hi Christian, Thanks a lot for your code. I am going to generate taxa-stacked bar plots for the top 10 of my genus. I used the following code and I generated a .tsv file. Could you please help me to make it. !qiime ta… --- ## [Taxa barplot problem with family, order and species](https://forum.qiime2.org/t/taxa-barplot-problem-with-family-order-and-species/28438)
**Author:** [@Linda\_Abenaim](https://forum.qiime2.org/u/Linda_Abenaim)\ **Replies:** 30\ **Last updated:** [December 13, 2023, 4:19pm UTC](https://forum.qiime2.org/t/taxa-barplot-problem-with-family-order-and-species/28438 "2023-12-13T16:19:14Z")
Hi everyone, I think have the same problem of this discussion Collapse taxonomy by tree tips instead of name k\_\_Bacteria;p\_\_Actinobacteria;c\_\_Actinobacteria;o\_\_Actinomycetales;;;\_\_ k\_\_Bacteria;p\_\_Actinobacteria;c\_\_Ac… --- ## [taxa barplot per two groups](https://forum.qiime2.org/t/taxa-barplot-per-two-groups/28422)
**Author:** [@Linda\_Abenaim](https://forum.qiime2.org/u/Linda_Abenaim)\ **Replies:** 16\ **Last updated:** [November 28, 2023, 5:55pm UTC](https://forum.qiime2.org/t/taxa-barplot-per-two-groups/28422 "2023-11-28T17:55:00Z")
Hi everyone! I wanted to know if there is a way to display in the taxa barplot exclusively the two groups that I am going to analyze and not every single sample. Let me explain better: I have two groups, control and tr… --- ## [Taxa barplot up to genus by grouping the rarest genus without using excel](https://forum.qiime2.org/t/taxa-barplot-up-to-genus-by-grouping-the-rarest-genus-without-using-excel/28265)
**Author:** [@Mout](https://forum.qiime2.org/u/Mout)\ **Replies:** 3\ **Last updated:** [November 14, 2023, 1:47pm UTC](https://forum.qiime2.org/t/taxa-barplot-up-to-genus-by-grouping-the-rarest-genus-without-using-excel/28265 "2023-11-14T13:47:59Z")
Hello, I'm a novice when it comes to using QIIME2 and I'm currently doing beta barcoding. I managed to get my barplot representing the bacterial genus composing the flora of my samples after filtering out the parameters… --- ## [taxa barplot (barchart) error](https://forum.qiime2.org/t/taxa-barplot-barchart-error/27255)
**Author:** [@Carlita](https://forum.qiime2.org/u/Carlita)\ **Replies:** 5\ **Last updated:** [August 11, 2023, 1:00pm UTC](https://forum.qiime2.org/t/taxa-barplot-barchart-error/27255 "2023-08-11T13:00:35Z")
Hello, I need help. The results that need to come out as bacteria from the barchart analyzed as Archaea according to the command tool . In addition, when the samples that came out well as bacteria are turned along with… --- ## [Making a better-looking barplot with the CSVs the program gives you.](https://forum.qiime2.org/t/making-a-better-looking-barplot-with-the-csvs-the-program-gives-you/27353)
**Author:** [@neocallimastix](https://forum.qiime2.org/u/neocallimastix)\ **Replies:** 2\ **Last updated:** [August 11, 2023, 7:39am UTC](https://forum.qiime2.org/t/making-a-better-looking-barplot-with-the-csvs-the-program-gives-you/27353 "2023-08-11T07:39:29Z")
Hi forum, I've got raw CSV outputs from the barplot program and need to redo these barplots in something else very quickly because my committee didn't think the QIIME2view SVG output was up to snuff. What are your favor… --- ## [Problems with taxa bar plot](https://forum.qiime2.org/t/problems-with-taxa-bar-plot/26482)
**Author:** [@Vicky\_Rodriguez](https://forum.qiime2.org/u/Vicky_Rodriguez)\ **Replies:** 1\ **Last updated:** [May 17, 2023, 2:51pm UTC](https://forum.qiime2.org/t/problems-with-taxa-bar-plot/26482 "2023-05-17T14:51:23Z")
Hello, It´s Vicky again ! I’m building my taxonomy plot, but when the command ends this message appears in the terminal, but the . qzv file contains nothing. --- ## [Pathway abundance barplot after q2-picrust2 tutorial](https://forum.qiime2.org/t/pathway-abundance-barplot-after-q2-picrust2-tutorial/24113)
**Author:** [@JetbluejetYJ](https://forum.qiime2.org/u/JetbluejetYJ)\ **Replies:** 1\ **Last updated:** [September 9, 2022, 7:28am UTC](https://forum.qiime2.org/t/pathway-abundance-barplot-after-q2-picrust2-tutorial/24113 "2022-09-09T07:28:02Z")
Hello, I did the (q2-picrust2-Tutorial) and got the pathway\_abundance.qza, ko\_metagenome.qza, ec\_metagenome.qza files. I used table.qza as the input file.(FeatureTable\[Frequency\] qza file) Now I just want to make barp… --- ## [Absolute abundance for taxa bar plot](https://forum.qiime2.org/t/absolute-abundance-for-taxa-bar-plot/23565)
**Author:** [@Ashley1](https://forum.qiime2.org/u/Ashley1)\ **Replies:** 1\ **Last updated:** [July 6, 2022, 6:50am UTC](https://forum.qiime2.org/t/absolute-abundance-for-taxa-bar-plot/23565 "2022-07-06T06:50:20Z")
Hi all, I'm wondering if there is a way to easily get the absolute abundance of the "qiime taxa barplot" ? As I read through other posts, it seems like the values in the CVS file that I downloaded from view "taxa-bar-pl… --- ## [Taxa barplot (Plugin error; sample IDs missing)](https://forum.qiime2.org/t/taxa-barplot-plugin-error-sample-ids-missing/23317)
**Author:** [@Anna\_Keisha\_Boateng](https://forum.qiime2.org/u/Anna_Keisha_Boateng)\ **Replies:** 3\ **Last updated:** [June 11, 2022, 3:30am UTC](https://forum.qiime2.org/t/taxa-barplot-plugin-error-sample-ids-missing/23317 "2022-06-11T03:30:43Z")
Hi, The command I ran was: qiime taxa barplot --i-table ARTIFACT-table.qza --i-taxonomy taxonomic-classification-ARTIFACT.qza --m-metadata-file ./META.tsv --o-visualization ARTIFACT-taxa-viz.qzv --verbose And the erro… --- ## [Beta Diversity Barplots in Qiime2? (Bray Curtis Distance Plot with Metadata variables, etc.)](https://forum.qiime2.org/t/beta-diversity-barplots-in-qiime2-bray-curtis-distance-plot-with-metadata-variables-etc/21650)
**Author:** [@DiegoP](https://forum.qiime2.org/u/DiegoP)\ **Replies:** 1\ **Last updated:** [December 14, 2021, 10:39pm UTC](https://forum.qiime2.org/t/beta-diversity-barplots-in-qiime2-bray-curtis-distance-plot-with-metadata-variables-etc/21650 "2021-12-14T22:39:21Z")
Greetings! Is there a way to generate bar plots for beta diversity in Qiime2? I would specifically like to see a bray cutis distance plot for each one of my metadata variables. Thanks! --- ## [Generate Krona charts from Taxa Barplots](https://forum.qiime2.org/t/generate-krona-charts-from-taxa-barplots/12639)
**Author:** [@the\_dummy](https://forum.qiime2.org/u/the_dummy)\ **Replies:** 19\ **Last updated:** [November 10, 2021, 8:11am UTC](https://forum.qiime2.org/t/generate-krona-charts-from-taxa-barplots/12639 "2021-11-10T08:11:06Z")
I have written a python script to generate Krona charts from taxa barplots, and I would like to share it. Krona charts are interactive pie charts, and I think they are useful because it visualizes samples one by one ver… --- ## [snakemake error while running taxa barplot](https://forum.qiime2.org/t/snakemake-error-while-running-taxa-barplot/21179)
**Author:** [@bobbieshaban](https://forum.qiime2.org/u/bobbieshaban)\ **Replies:** 2\ **Last updated:** [October 27, 2021, 2:19pm UTC](https://forum.qiime2.org/t/snakemake-error-while-running-taxa-barplot/21179 "2021-10-27T14:19:58Z")
Hi All, I am having running an issue creating a taxa barplot using qiime2/2021.2 from within a snakemake workflow Here is my task ''' rule qiime\_taxa\_plot: input: ## if statement for taxonomy and tax\_training class… --- ## [How to combine low frequency taxa into an "other" category on barplot?](https://forum.qiime2.org/t/how-to-combine-low-frequency-taxa-into-an-other-category-on-barplot/21138)
**Author:** [@MicrobeManager](https://forum.qiime2.org/u/MicrobeManager)\ **Replies:** 2\ **Last updated:** [October 22, 2021, 3:11pm UTC](https://forum.qiime2.org/t/how-to-combine-low-frequency-taxa-into-an-other-category-on-barplot/21138 "2021-10-22T15:11:34Z")
Thanks to the help I've received on the forums, I have completed my first QIIME2 workflow and produced a number of barplots, PCoAs, etc from the analysis. I am interested in publishing some barplots of order-level taxa f… --- ## [Colormap and Collapsed Data](https://forum.qiime2.org/t/colormap-and-collapsed-data/20945)
**Author:** [@jwdebelius](https://forum.qiime2.org/u/jwdebelius)\ **Replies:** 3\ **Last updated:** [October 6, 2021, 8:24am UTC](https://forum.qiime2.org/t/colormap-and-collapsed-data/20945 "2021-10-06T08:24:09Z")
Hi team! I had an awesome interaction with Lisa Karstens, the developer of microshades recently. It's a really beautiful up to 30 (!!!!) shade colorblind friendly palette. The individual color palettes are also all kind… --- ## [Show the top abundant ASV composition with interactive bar plots?](https://forum.qiime2.org/t/show-the-top-abundant-asv-composition-with-interactive-bar-plots/20056)
**Author:** [@11131](https://forum.qiime2.org/u/11131)\ **Replies:** 5\ **Last updated:** [July 2, 2021, 7:46am UTC](https://forum.qiime2.org/t/show-the-top-abundant-asv-composition-with-interactive-bar-plots/20056 "2021-07-02T07:46:18Z")
Hello, Could the interactive bar plot created by qiime taxa barplot show only the top abundant ASV or genus among samples? Thanks! Hongbin Liu --- ## [Questions about collapsed abundance of taxa barplot !](https://forum.qiime2.org/t/questions-about-collapsed-abundance-of-taxa-barplot/18934)
**Author:** [@KKN](https://forum.qiime2.org/u/KKN)\ **Replies:** 5\ **Last updated:** [March 29, 2021, 10:10pm UTC](https://forum.qiime2.org/t/questions-about-collapsed-abundance-of-taxa-barplot/18934 "2021-03-29T22:10:52Z")
Hi, I'm a biginner in QIIME2 world. (16S rRNA seqs) I have questions at barplot with collapsed ASVs (by q2-taxa collapse). Below are detailed information about our analysis. In the beginning, I got pair-end fastq file… --- ## [Differences in relative abundances obtained in taxabarplot using grouped tables with calculated in Python by "average" method from numpy](https://forum.qiime2.org/t/differences-in-relative-abundances-obtained-in-taxabarplot-using-grouped-tables-with-calculated-in-python-by-average-method-from-numpy/15204)
**Author:** [@timanix](https://forum.qiime2.org/u/timanix)\ **Replies:** 2\ **Last updated:** [February 8, 2021, 7:50pm UTC](https://forum.qiime2.org/t/differences-in-relative-abundances-obtained-in-taxabarplot-using-grouped-tables-with-calculated-in-python-by-average-method-from-numpy/15204 "2021-02-08T19:50:41Z")
Dear all! Me again. I produced a taxabarplot file with grouped by niche samples: Niche\_taxabarplot.qzv commands: qiime feature-table group \\ --i-table Infected\_table.qza \\ --p-axis 'sample' \\ … --- ## [Necessity of Alpha-, Beta Diversity and Rarefaction Before Drawing a Taxa Bar-plot.](https://forum.qiime2.org/t/necessity-of-alpha-beta-diversity-and-rarefaction-before-drawing-a-taxa-bar-plot/17691)
**Author:** [@TurboQiimer](https://forum.qiime2.org/u/TurboQiimer)\ **Replies:** 1\ **Last updated:** [December 6, 2020, 6:47pm UTC](https://forum.qiime2.org/t/necessity-of-alpha-beta-diversity-and-rarefaction-before-drawing-a-taxa-bar-plot/17691 "2020-12-06T18:47:44Z")
Hi pals, A question is raised in my mind, then I need to take advantage of your idea and experience. To draw an acceptable and well-analyzed taxa bar plot in terms of science in Qiime2 or any software package, should I… --- ## [Replace missing taxonomic ranks](https://forum.qiime2.org/t/replace-missing-taxonomic-ranks/17692)
**Author:** [@sbombin](https://forum.qiime2.org/u/sbombin)\ **Replies:** 3\ **Last updated:** [December 4, 2020, 4:15pm UTC](https://forum.qiime2.org/t/replace-missing-taxonomic-ranks/17692 "2020-12-04T16:15:17Z")
Please read the following before posting! The database that I used for the taxonomic assignment has gaps in taxonomic ranks: Seq1 d,Eukaryota;p,Bacillariophyta;c,Coscinodiscophyceae;o,Thalassiosirales;f,Thalassiosirac… --- ## [Creation of barplot with excel](https://forum.qiime2.org/t/creation-of-barplot-with-excel/17245)
**Author:** [@cortegas](https://forum.qiime2.org/u/cortegas)\ **Replies:** 11\ **Last updated:** [October 29, 2020, 5:09pm UTC](https://forum.qiime2.org/t/creation-of-barplot-with-excel/17245 "2020-10-29T17:09:00Z")
Hi everyone, I exported my taxa-bar-plot data as a CSV file to my computer to create a barplot by groups rather than by sample ID. I am having trouble creating the same type of barplots that we get in QIIME2 on excel. D… --- ## [From qurro to taxa barplots](https://forum.qiime2.org/t/from-qurro-to-taxa-barplots/16754)
**Author:** [@arwqiime](https://forum.qiime2.org/u/arwqiime)\ **Replies:** 2\ **Last updated:** [October 1, 2020, 7:38am UTC](https://forum.qiime2.org/t/from-qurro-to-taxa-barplots/16754 "2020-10-01T07:38:43Z")
Hi, I would like to use taxa barplots to display selected feature e.g. from qurro analyses. For testing I did the following: I have analysed a microbiome data by deicode and could identify the most contributing taxa t… --- ## [How to access level#.csv files from the variable generated by the barplot function?](https://forum.qiime2.org/t/how-to-access-level-csv-files-from-the-variable-generated-by-the-barplot-function/14275)
**Author:** [@Rodrigo\_Peralta](https://forum.qiime2.org/u/Rodrigo_Peralta)\ **Replies:** 2\ **Last updated:** [March 31, 2020, 2:45pm UTC](https://forum.qiime2.org/t/how-to-access-level-csv-files-from-the-variable-generated-by-the-barplot-function/14275 "2020-03-31T14:45:25Z")
I want to save each level#.csv in a pandas dataframe. taxa\_barplot = barplot(table = table, taxonomy = taxonomy, metadata = metadata) Is it possible to access level#.csv files from the variable taxa\_barplot? Without ac… --- ## [Need help to create a barplot of my data with the qiime taxa barplot visualizer.](https://forum.qiime2.org/t/need-help-to-create-a-barplot-of-my-data-with-the-qiime-taxa-barplot-visualizer/13993)
**Author:** [@s\_lang](https://forum.qiime2.org/u/s_lang)\ **Replies:** 3\ **Last updated:** [March 12, 2020, 5:34pm UTC](https://forum.qiime2.org/t/need-help-to-create-a-barplot-of-my-data-with-the-qiime-taxa-barplot-visualizer/13993 "2020-03-12T17:34:49Z")
I have run the pipeline from @Deni\_Ribicic q2ONT- q2 workflow for analysis of full length ONT 16S rRNA gene reads with my Nanopore data of a 16S sequencing. Importing the ONT data, training the classifier with the SILVA … [Next page](https://forum.qiime2.org/tag/barplot/121.md?match_all_tags=true&page=1&tags%5B%5D=barplot)