From 4ad732a7486b24320561f41868abb267d408f429 Mon Sep 17 00:00:00 2001
From: nsheff <nsheff@users.noreply.github.com>
Date: Thu, 13 Jun 2024 08:40:39 -0400
Subject: [PATCH] more manuscript organization

---
 docs/geniml/README.md | 11 ++++++++---
 mkdocs.yml            |  2 +-
 2 files changed, 9 insertions(+), 4 deletions(-)

diff --git a/docs/geniml/README.md b/docs/geniml/README.md
index 1676f42..05b2da3 100644
--- a/docs/geniml/README.md
+++ b/docs/geniml/README.md
@@ -22,9 +22,14 @@ As of Feburary 2024, this package and its documentation are undergoing rapid dev
 pip install --user --upgrade geniml
 ```
 
-## Modules and resources by publication
+## Modules and resources
 
-`geniml` is organized into modules. The modules section gives an [overview of each module](modules.md). `geniml` includes many genomic interval analysis methods published in a variety of separate publications. If you're coming here from a manuscript, you can also find the relevant tutorials by visiting the landing page for the publication of interest: 
+### Organization
+
+`geniml` is organized into modules. The modules section gives an [overview of each module](modules.md).
+
+### Browsing by publication
+
+If you're coming here from a manuscript, you might find it easier to identify the tutorials relevant for a particular manuscript by visiting the landing page for the publication of interest. You can find documentation organized by manuscript in the [manuscripts section](../citations.md).
 
-- [Rymuza et al. 2024](manuscripts/rymuza2024.md)
 
diff --git a/mkdocs.yml b/mkdocs.yml
index 8596591..27a46cb 100644
--- a/mkdocs.yml
+++ b/mkdocs.yml
@@ -116,7 +116,7 @@ nav:
       - Changelog: geniml/changelog.md
   - Gtars:
     - Gtars: gtars/README.md
-  - How to cite: 
+  - Manuscripts: 
     - How to cite: citations.md
     - Published manuscripts:
       - Gharavi et al. 2021: manuscripts/gharavi2021.md