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update README
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@jluebeck
jluebeck committed Dec 13, 2023
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Expand Up @@ -43,7 +43,7 @@ Please check out the **detailed guide** on running AA [available here](https://g
1. [AmpliconSuite-pipeline](#recommended-way-to-run-aa-ampliconsuite-pipeline)
2. [Installation](#installation)
3. [Usage](#running-ampliconarchitect)
4. [AA outputs and arguments](#ampliconarchitect-outputs-and-arguments)
4. [AA outputs and arguments](#ampliconarchitect-output-files-and-command-line-arguments)
5. [The AA Algorithm](#the-aa-algorithm)
6. [Checkpointing and modular integration with other tools](#checkpointing-and-modular-integration-with-other-tools)

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