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docs: point to University for full usage docs
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a-frantz committed Apr 9, 2021
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Expand Up @@ -4,6 +4,8 @@ The WARDEN (**W**orkflow for the **A**nalysis of **R**NA-Seq **D**ifferential **

There are 3 entrypoints to the WARDEN workflow. The start-to-end workflow begins with FastQ files which are aligned by STAR. WARDEN can optionally be entered at this point with user-aligned RNA-Seq BAMs. Aligned BAMs are then run through HTSeq-count to determine the number of reads mapping to features. The next stage can also be entered with user-derived count files, where differential expression analysis is performed on the defined cohorts.

For the full usage documentation, visit the [St. Jude Cloud University](https://university.stjude.cloud/docs/genomics-platform/workflow-guides/warden/).

## Workflow Steps

1. FastQ files generated by RNA-Seq are mapped to a reference genome using the STAR.
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