# Running post-alignment QA/QC

After alignment has completed, we can view the quality of alignment by performing post-alignment QA/QC.

* Click the **Aligned reads** data node
* Click **QA/QC** inthe task menu
* Click **Post-alignment QA/QC** from the QA/QC section of the task menu (Figure 1)

<figure><img src="/files/fP2N5sPqthsWC7duQ7Th" alt=""><figcaption><p><em>Figure 1. Invoking Post-alignment QA/QC</em></p></figcaption></figure>

A Post-alignment QA/QC task node will be generated (Figure 2).

<figure><img src="/files/gEbp34Qn7UltVo4GzA1V" alt=""><figcaption><p><em>Figure 2. Post-alignment QA/QC task node</em></p></figcaption></figure>

* Double-click the **Post-alignment QA/QC** task node to view the task report

Similar to the Pre-alignment QA/QC task report, general quality information about the whole data set is displayed and sample-level reports can be opened by clicking a sample name in the table.

The first two graphs in the report (Figure 3) show the alignment breakdown and total reads in each sample.

<figure><img src="/files/4DNxweMXhlP14dpNPlw2" alt=""><figcaption><p><em>Figure 3. Alignment statistics for the data set</em></p></figcaption></figure>

From these graphs, we can see that more than 95% of reads were aligned, but the total number of reads for each sample varies. Normalizing for the variability in total read counts will be addressed in a later section of the tutorial.

For more information about the graphs and information presented in the Post-alignment QA/QC task report, see the [Post-alignment QA/QC](/partek/partek-flow/user-manual/task-menu/qa-qc/post-alignment-qa-qc.md) user guide.

## 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.


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