From 2c1d8ce3bbd4f206d97b75dbf8efbcfebe762dd6 Mon Sep 17 00:00:00 2001
From: Yichen Wang <wayichen@umich.edu>
Date: Sun, 5 Nov 2023 11:46:39 -0500
Subject: [PATCH] organize pkgdown yml

---
 _pkgdown.yml | 8 ++++++--
 1 file changed, 6 insertions(+), 2 deletions(-)

diff --git a/_pkgdown.yml b/_pkgdown.yml
index df2ac36e..43b2c2b7 100644
--- a/_pkgdown.yml
+++ b/_pkgdown.yml
@@ -32,8 +32,10 @@ reference:
   - runINMF
   - runOnlineINMF
   - runUINMF
-  - starts_with("optimize")
-  - online_iNMF
+  - optimizeNewData
+  - optimizeNewK
+  - optimizeNewLambda
+  - optimizeSubset
   - suggestK
   - suggestLambda
 - title: "Downstream Analysis"
@@ -49,6 +51,8 @@ reference:
   - runDoubletFinder
   - runGSEA
   - runGOEnrich
+- title: "ATAC Specific Analysis"
+- contents:
   - imputeKNN
   - linkGenesAndPeaks
   - exportInteractTrack