Answers.Body: <p>Assuming you are following the basic seurat guide:</p>
  
  <pre><code>pbmc@ident
  </code></pre>
  
  <p>You can access the <code>'ident'</code> slot of your Seurat object and you will get a vector of the cluster IDs and the names will be the respective cells.</p>
  
  <pre><code>head(seuratobj@ident)
  Cell1A7 Cell1C4 Cell1D1 Cell1D2 Cell1D3 Cell1D5
  0 3 3 1 3 1 
  Levels: 0 1 2 3 4
  </code></pre>
  
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2019-03-05T10:09:33.233Z
Answers.Text: In my example, the printing wasn't great but essentially Cell1A7 is in cluster 0, Cell 1C4 is in cluster 3, etc...
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Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2019-03-05T10:08:46.403Z
Answers.LastActivityDate: 2019-03-05T10:25:58.553Z
Answers.LastEditDate: 2019-03-05T10:25:58.553Z
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Body: <p>I have followed the Seurat T<a href="https://satijalab.org/seurat/immune_alignment.html" rel="nofollow noreferrer">utorial:Integrating stimulated vs. control PBMC datasets</a> to learn cell-type specific responses by using my data. And I am confused about how to write the script to calculate the cell number of each sample on each cluster. </p>
  
  <p>I have run TSENPlot to know the samples and I'm using another TSENPlot to get the clusters. If I want to know find the cluster1 of each sample's number how can I write the script? </p>
  
  <p><a href="https://i.sstatic.net/MbRGr.jpg" rel="nofollow noreferrer"><img src="https://i.sstatic.net/MbRGr.jpg" alt="enter image description here"></a></p>
  
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2019-03-05T10:22:59.363Z
Comments.Text: Please [edit] your question and give us some more details. What exactly do you need? Can you show us the code you have run?
Comments.UserDisplayName: terdon
Tags: <single-cell>
Title: how to write the script to know each sample's cluster number?
ThreadText: # how to write the script to know each sample's cluster number?
  
  (Asked by: username_0 on 2019-03-05)
  
  I have followed the Seurat T[utorial:Integrating stimulated vs. control PBMC datasets](https://satijalab.org/seurat/immune_alignment.html) to learn cell-type specific responses by using my data. And I am confused about how to write the script to calculate the cell number of each sample on each cluster.
  
  I have run TSENPlot to know the samples and I'm using another TSENPlot to get the clusters. If I want to know find the cluster1 of each sample's number how can I write the script?
  
  [![enter image description here](https://i.sstatic.net/MbRGr.jpg)](https://i.sstatic.net/MbRGr.jpg)
  
  **Tags:** single-cell
  
  > **Comments:**
  > **username_1**: Please [edit] your question and give us some more details. What exactly do you need? Can you show us the code you have run?  
  
  ---
  
  ## 1 answers
  
  ### Answer by username_2 on 2019-03-05. Score: 2
  
  Assuming you are following the basic seurat guide:
  
  ```
  pbmc@ident
  
  ```
  
  You can access the `'ident'` slot of your Seurat object and you will get a vector of the cluster IDs and the names will be the respective cells.
  
  ```
  head(seuratobj@ident)
  Cell1A7 Cell1C4 Cell1D1 Cell1D2 Cell1D3 Cell1D5
  0 3 3 1 3 1 
  Levels: 0 1 2 3 4
  
  ```
  
  > **Comments:**
  > **username_2**: In my example, the printing wasn't great but essentially Cell1A7 is in cluster 0, Cell 1C4 is in cluster 3, etc...  
  
  ---
  
  