<p>I want to export the list of soft-clipped regions into a csv file from a region of interest in IGV. Additional information regarding the soft-clipped sequence, coordinate and nucleotide length will be helpful.
<a href="https://i.sstatic.net/2lM8V.png" rel="nofollow noreferrer"><img src="https://i.sstatic.net/2lM8V.png" alt="enter image description here" /></a></p>
<p>PFB the output file format</p>
<div class="s-table-container">
<table class="s-table">
<thead>
<tr>
<th>Gene</th>
<th>Variant</th>
</tr>
</thead>
<tbody>
<tr>
<td>FLT3</td>
<td>chr13:28034082C&gt;CAAACTCTAAATTTTCTCTTGGAAACTCCCATTTGAGATCATATAG</td>
</tr>
<tr>
<td>FLT3</td>
<td>chr13:28034113T&gt;TTTGAGATCATATTCATATTCTCTGAAATCAACGTAGAAGTACTCATTATCTGAGGAGCCGGTCACCTGTACCACC</td>
</tr>
</tbody>
</table>
</div>
CC BY-SA 4.0
2023-05-02T11:06:37.543Z
Does this have to be done from IGV?
terdon
CC BY-SA 4.0
2023-05-02T13:09:49.760Z
Also, please [edit] your question and add an example of the output format you want to see. What _exact_ fields should be in the csv?
terdon
<sam><igv>
How to export the list of soft-clipped regions from a region of interest in IGV
# How to export the list of soft-clipped regions from a region of interest in IGV

(Asked by: username_0 on 2023-05-02)

I want to export the list of soft-clipped regions into a csv file from a region of interest in IGV. Additional information regarding the soft-clipped sequence, coordinate and nucleotide length will be helpful.
[![enter image description here](https://i.sstatic.net/2lM8V.png)](https://i.sstatic.net/2lM8V.png)

PFB the output file format

| Gene | Variant |
| --- | --- |
| FLT3 | chr13:28034082C>CAAACTCTAAATTTTCTCTTGGAAACTCCCATTTGAGATCATATAG |
| FLT3 | chr13:28034113T>TTTGAGATCATATTCATATTCTCTGAAATCAACGTAGAAGTACTCATTATCTGAGGAGCCGGTCACCTGTACCACC |

**Tags:** sam, igv
> **Comments:**
> **username_1**: Does this have to be done from IGV?  
> **username_1**: Also, please [edit] your question and add an example of the output format you want to see. What _exact_ fields should be in the csv?  

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## 0 answers

