# ITS analysis for Pacbio generated data sets **URL:** https://forum.qiime2.org/t/its-analysis-for-pacbio-generated-data-sets/25317 **Category:** User Support **Created:** [January 26, 2023, 4:57pm UTC](https://forum.qiime2.org/t/its-analysis-for-pacbio-generated-data-sets/25317 "2023-01-26T16:57:34Z") **Posts on this page:** 1 **Showing post:** 2
### Author: ![Keegan-Evans](https://forum.qiime2.org/user_avatar/forum.qiime2.org/keegan-evans/32/10422_2.png) [@Keegan-Evans](https://forum.qiime2.org/u/Keegan-Evans) #### Post date: [February 1, 2023, 4:58pm UTC](https://forum.qiime2.org/t/its-analysis-for-pacbio-generated-data-sets/25317/2 "2023-02-01T16:58:14Z")
@divyaprince321, Any there is a question of workflows and pipelines come up, there are a couple of great resources on our website that often answer basic questions and help get you oriented to the problem: [QIIME 2 for Experienced Microbiome Researchers](https://docs.qiime2.org/2022.11/tutorials/qiime2-for-experienced-microbiome-researchers/) and [Overview of QIIME 2 plugin workflows](https://docs.qiime2.org/2022.11/tutorials/overview/). That being said, your case is somewhat complicated by a few things that are a little outside of typical QIIME 2 workflows, namely your PacBio sequencing data and your targeting of ITS. For quality control and deneoising with PacBio sequencing data, the best tool that we have right now is `denoise-ccs` found in q2-DADA2([DOCS](https://docs.qiime2.org/2022.11/plugins/available/dada2/denoise-ccs/)). As far as I am aware, there are not really "forward" or "reverse" reads, rather the genetic material is sequenced continuously in a loop until the quality scores rise to an acceptable level, so what you are seeing with your raw sequencing data makes a lot of sense, and the DADA2 method does dereplicate them as needed as well. You will want to import your raw sequencing data with the type `SampleData[SequencesWithQuality]` to feed it into q2-DADA2. After running through q2-DADA2, you should be left with a `FeatureTable[Frequency]` and a `FeatureData[Sequence]` that you can use for any of the typical downstream QIIME 2 workflows. To look at ITS specifically, checkout the [ITS Fungal Analysis tutorial](https://forum.qiime2.org/t/fungal-its-analysis-tutorial/7351) and the [q2-ITSexpress tutorial](https://forum.qiime2.org/t/q2-itsxpress-a-tutorial-on-a-qiime-2-plugin-to-trim-its-sequences/5780). --- _[View the full topic](https://forum.qiime2.org/t/its-analysis-for-pacbio-generated-data-sets/25317)._