# Post-alignment tools

Post-alignment tools involve tasks that can be performed on aligned data. These are typically used in preparing aligned data for other downstream analyses, such as DNA-Seq or RNA-Seq analysis.

To invoke Post-alignment tools, click on an **Aligned reads** data node (Figure 1). There are three functions available in Post-alignment tools:

* [Filter alignments](/partek/partek-flow/user-manual/task-menu/post-alignment-tools/filter-alignments.md)
* [Convert alignments to unaligned reads](/partek/partek-flow/user-manual/task-menu/post-alignment-tools/convert-alignments-to-unaligned-reads.md)
* [Combine alignments](/partek/partek-flow/user-manual/task-menu/post-alignment-tools/combine-alignments.md)
* [Deduplicate UMIs](/partek/partek-flow/user-manual/task-menu/post-alignment-tools/deduplicate-umis.md)
* [Downscale alignments](/partek/partek-flow/user-manual/task-menu/post-alignment-tools/downscale-alignments.md)

<figure><img src="/files/9D5rEGchWtwUCXWPboCx" alt=""><figcaption><p>Figure 1. Invoking Post-alignment tools</p></figcaption></figure>

## Additional Assistance

If you need additional assistance, please visit [our support page](http://www.partek.com/support) to submit a help ticket or find phone numbers for regional support.


---

# Agent Instructions: Querying This Documentation

If you need additional information that is not directly available in this page, you can query the documentation dynamically by asking a question.

Perform an HTTP GET request on the current page URL with the `ask` query parameter:

```
GET https://help.connected.illumina.com/partek/partek-flow/user-manual/task-menu/post-alignment-tools.md?ask=<question>
```

The question should be specific, self-contained, and written in natural language.
The response will contain a direct answer to the question and relevant excerpts and sources from the documentation.

Use this mechanism when the answer is not explicitly present in the current page, you need clarification or additional context, or you want to retrieve related documentation sections.
