# Bulding a phylogeny using taxonomy **URL:** \ **Category:** User Support\ **Tags:** phylogeny, taxonomy\ **Created:** [March 28, 2022, 5:58pm UTC](https://forum.qiime2.org/t/bulding-a-phylogeny-using-taxonomy/22600 "2022-03-28T17:58:59Z")\ **Posts on this page:** 7\ **Page:** 1
**Author:** ![Omer](https://forum.qiime2.org/letter_avatar_proxy/v4/letter/o/258eb7/32.png) [@Omer](https://forum.qiime2.org/u/Omer)\ **Post date:** [March 28, 2022, 5:58pm UTC](https://forum.qiime2.org/t/bulding-a-phylogeny-using-taxonomy/22600/1 "2022-03-28T17:58:59Z")
Hi, a question as a pretty new user of QIIME2 (and a researcher in the microbiome world). I'm working with a collabrator, and recived from him, after he DADA2 processed it, table containing the observed ASV's per sample , and a table with the taxonomic assignment per observed ASV created using a refrence database, which I will import as (FeatureTable[Frequency]) and (FeatureData[Taxonomy]), respectively. After going through the phylogeny pipeline I noticed you have to provide a FeatureData[Sequence] artifact. is there any way to generate the phylogeny tree using the taxonomic data I have? Thanks a lot ---
**Author:** ![SoilRotifer](https://forum.qiime2.org/user_avatar/forum.qiime2.org/soilrotifer/32/21071_2.png) [@SoilRotifer](https://forum.qiime2.org/u/SoilRotifer)\ **Post date:** [March 28, 2022, 7:18pm UTC](https://forum.qiime2.org/t/bulding-a-phylogeny-using-taxonomy/22600/2 "2022-03-28T19:18:04Z")
Hi @Omer, The only way to make a phylogeny is through the use of character state information, _e.g._ molecular sequences, morphology, etc... . Are you asking for a way to visualize your taxonomic information as hierarchy tree? If so, this is currently not possible within QIIME 2. I think there might be external tools to do this. _Also note, that phylogeny and taxonomy often do not agree with one another. What you may observe through a taxonomy tree may not be the same as what you generate from a phylogenetic tree, for a variety of reasons._ ---
**Author:** ![Omer](https://forum.qiime2.org/letter_avatar_proxy/v4/letter/o/258eb7/32.png) [@Omer](https://forum.qiime2.org/u/Omer)\ **Post date:** [March 29, 2022, 5:13am UTC](https://forum.qiime2.org/t/bulding-a-phylogeny-using-taxonomy/22600/3 "2022-03-29T05:13:38Z")
> [@SoilRotifer](#): > > Hi @Omer, > > The only way to make a phylogeny is through the use of character state information, _e.g._ molecular sequences, morphology, etc... . ok thanks. So in this case it means I have to get the upstream sequences after the DADA2 process? [/quote] _Also note, that phylogeny and taxonomy often do not agree with one another. What you may observe through a taxonomy tree may not be the same as what you generate from a phylogenetic tree, for a variety of reasons._ [/quote] Could you please expend on that point? ---
**Author:** ![SoilRotifer](https://forum.qiime2.org/user_avatar/forum.qiime2.org/soilrotifer/32/21071_2.png) [@SoilRotifer](https://forum.qiime2.org/u/SoilRotifer)\ **Post date:** [March 29, 2022, 1:41pm UTC](https://forum.qiime2.org/t/bulding-a-phylogeny-using-taxonomy/22600/4 "2022-03-29T13:41:54Z")
> [@Omer](#): > > ok thanks. So in this case it means I have to get the upstream sequences after the DADA2 process? Yes. Although you can construct a phylogeny with these data. It is often recommended that you perform additional filtering of the data after denoising. See the following tutorial for some examples: - [filtering feature-tables](https://docs.qiime2.org/jupyterbooks/cancer-microbiome-intervention-tutorial/030-tutorial-downstream/010-filtering.html#filtering-feature-tables) - [filter by taxonomy](https://docs.qiime2.org/jupyterbooks/cancer-microbiome-intervention-tutorial/030-tutorial-downstream/020-taxonomy.html#filtering-filters-based-on-their-taxonomy) _Note: make sure the dop menu at the top of these pages is set to: `Command Line (q2cli)`_ You can also find some examples in the other [QIIME 2 tutorials](https://docs.qiime2.org/2022.2/tutorials/). ---
**Author:** ![Omer](https://forum.qiime2.org/letter_avatar_proxy/v4/letter/o/258eb7/32.png) [@Omer](https://forum.qiime2.org/u/Omer)\ **Post date:** [March 29, 2022, 3:03pm UTC](https://forum.qiime2.org/t/bulding-a-phylogeny-using-taxonomy/22600/5 "2022-03-29T15:03:20Z")
thanks again. what is the qiime2 pipline for consructing a phylogeny using these data? I have found only using FeatureData[Sequence] as an artifact. ---
**Author:** ![SoilRotifer](https://forum.qiime2.org/user_avatar/forum.qiime2.org/soilrotifer/32/21071_2.png) [@SoilRotifer](https://forum.qiime2.org/u/SoilRotifer)\ **Post date:** [March 29, 2022, 3:49pm UTC](https://forum.qiime2.org/t/bulding-a-phylogeny-using-taxonomy/22600/6 "2022-03-29T15:49:40Z")
Everything you need to learn how to run QIIME 2 is on the [Tutorials page](https://docs.qiime2.org/2022.2/tutorials/). Specifically, read through the [Phylogeny tutorial](https://docs.qiime2.org/2022.2/tutorials/phylogeny/), and the associated YouTube videos: - [Phylogenetic reconstruction](https://www.youtube.com/watch?v=0nEabGxFxlY&list=PLbVDKwGpb3XmkQmoBy1wh3QfWlWdn_pTT) - [PD Mice: Phylogenetic reconstruction](https://www.youtube.com/watch?v=Fko7zkQOngw&list=PLbVDKwGpb3XmkQmoBy1wh3QfWlWdn_pTT) Good Luck! ---
**Author:** ![system](https://forum-qiime2-org.s3.dualstack.us-west-2.amazonaws.com/original/3X/2/1/21af5fe23cb6f4579467c66a9ed94e55274ca7bd.svg) [@system](https://forum.qiime2.org/u/system)\ **Post date:** [April 29, 2022, 9:50pm UTC](https://forum.qiime2.org/t/bulding-a-phylogeny-using-taxonomy/22600/7 "2022-04-29T21:50:19Z")
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