Merge branch 'main' of https://github.com/IBM/AutoPeptideML into main

README.md

@@ -19,12 +19,15 @@
 <a href="https://pypi.org/project/autopeptideml/"><img src="https://img.shields.io/pypi/dm/autopeptideml" /></a>
 
 
+
+
   </p>
 </div>
 
 - **Documentation:**  <a href="https://ibm.github.io/AutoPeptideML/" target="_blank">https://ibm.github.io/AutoPeptideML</a>
 - **Source Code:** <a href="https://github.com/IBM/AutoPeptideML" target="_blank">https://github.com/IBM/AutoPeptideML</a>
 - **Webserver:** <a href="http://peptide.ucd.ie/AutoPeptideML" target="_blank">http://peptide.ucd.ie/AutoPeptideML</a>
+- **Paper Pre-print:** <a href="https://www.biorxiv.org/content/10.1101/2023.11.13.566825v1" target="_blank">https://www.biorxiv.org/content/10.1101/2023.11.13.566825v1</a>
 
 AutoPeptideML allows researchers without prior knowledge of machine learning to build models that are:
 
@@ -213,7 +216,7 @@ There is an example available in the [default configuration file](https://github
 
 <details markdown="1"><summary><b>4. API</summary></b><a name="api"></a>
 
-Example notebooks and documentation in how to use the API can be found in the `examples` directory.
+Please check the [Code reference documentation](https://ibm.github.io/AutoPeptideML/autopeptideml/)
 
 </details>
 

mkdocs.yml

@@ -23,16 +23,16 @@ theme:
       scheme: default
       primary: black
       accent: purple
-      toggle:
-        icon: material/weather-sunny
-        name: Switch to light mode
+      # toggle:
+      #   icon: material/weather-sunny
+      #   name: Switch to light mode
     - media: "(prefers-color-scheme: dark)"
       scheme: slate
       primary: black
       accent: lime
-      toggle:
-        icon: material/weather-night
-        name: Switch to dark mode
+      # toggle:
+      #   icon: material/weather-night
+      #   name: Switch to dark mode
       features:
         - search.suggest
         - search.highlight
@@ -84,4 +84,4 @@ markdown_extensions:
 extra:
   social:
   - icon: fontawesome/brands/github-alt
-    link: https://github.com/IBM/AutoPeptideML
+    link: https://github.com/IBM/AutoPeptideML

setup.py

@@ -51,6 +51,6 @@
     name='autopeptideml',
     packages=find_packages(exclude=['examples']),
     url='https://github.ibm.com/raulfd/autopeptideml',
-    version='0.1.0',
+    version='0.1.1',
     zip_safe=False,
 )