docs: add cascadia

mriffle · Feb 17, 2025 · 5b58b2f · 5b58b2f
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diff --git a/docs/source/index.rst b/docs/source/index.rst
@@ -3,7 +3,7 @@ Skyline DIA Nextflow Documentation
 ===================================
 This workflow is designed to go from RAW files to a Skyline document with search and quantification
 results. These results may be optionally uploaded to PanoramaWeb/ProteomeXchange. It makes use of
-either DIA-NN or EncyclopeDIA to perform the search.
+DIA-NN, EncyclopeDIA, or Cascadia (coming soon) to perform the search.
 
 Please use the links below to navigate to pages describing how to install and run the workflow,
 how to retrieve results, and how to set up AWS Batch to run the workflow in the cloud.

diff --git a/docs/source/overview.rst b/docs/source/overview.rst
@@ -10,6 +10,12 @@ Multiple specific workflows may be run with this Nextflow workflow. Note that in
 workflow can automatically generate requested reports from the Skyline document and can automatically
 upload and (optionally) import the Skyline document into PanoramaWeb and ProteomeXchange.
 
+Cascadia workflow (coming soon):
+===================================
+The workflow will perform *de novo* identification of peptides using user-supplied DIA RAW (or mzML) files.
+The workflow will generate a Skyline document where users may visualize the *de novo* results and export
+integrated peak areas for the identified peptides.
+
 DIA-NN workflow:
 ===================================
 The workflow will quantify peptides and proteins using user-supplied DIA RAW (or mzML) files, FASTA file, and spectral