Merge pull request #140 from arenasg/main

update homepage card content, options

_data/announcements.yml

@@ -1,3 +1,25 @@
+atlas_news:
+  - title: "Melanoma Pre-Cancer and Progression Atlas"
+    image: data-cards/mel-3d-mis-2.jpg
+    link: /atlases/melanoma-pca
+    label: Atlas
+    target: "_blank"
+  - title: "BRCA-positive Breast Cancer Atlas"
+    image: data-cards/brca1-associated-triple.jpg
+    link: https://www.graybrcaatlas.org/
+    label: Atlas
+    target: "_blank"
+  - title: "Colorectal Cancer Atlas"
+    image: data-cards/orion-crc.jpg
+    link: /atlases/colorectal-cancer
+    label: Atlas
+    target: "_blank"
+  - title: "Ludwig Tumor Atlas: A Focus on Drug Resistance"
+    image: data-cards/combination-therapy-in-ovarian-cancer.jpg
+    link: https://www.ludwigtumoratlas.org/
+    label: Atlas
+    target: "_blank"
+
 news_press:
   - title: "'Multiplexed 3D atlas' selected as the Best of Cell 2023"
     author: " "
@@ -104,44 +126,3 @@ publications_software:
     link: "publications#multiplexed-3D-atlas-of-state-transitions-and-immune-interactions-in-colorectal-cancer"
     label: Publication  # [Publication|Software|Method]
     target: "_blank"  # [_self|_blank]
-  - title: "Spatial intra-tumor heterogeneity is associated with survival of lung adenocarcinoma patients"
-    author: "Wu, et al."
-    year: 2022
-    publication: "Cell Genomics"
-    image: "publications/spatial-intra-tumor-heterogeneity-is-associated-with-survival-of-lung-adenocarcimoma-patients.jpg"
-    link: "publications#spatial-intra-tumor-heterogeneity-is-associated-with-survival-of-lung-adenocarcinoma-patients"
-    label: Publication  # [Publication|Software|Method]
-    target: "_self"  # [_self|_blank]
-  - title: "Minerva"
-    description: "A suite of software tools for interpreting, interacting with, and sharing complex image data."
-    author:
-    year:
-    publication:
-    image: "software/minerva_v2.png"
-    link: "software#minerva"
-    label: Software  # [Publication|Software|Method]
-    target: "_self"  # [_self|_blank]
-  - title: "The spatial landscape of progression and immunoediting in primary melanoma at single cell resolution"
-    description:
-    author: "Nirmal, et al."
-    year: 2022
-    publication: "Cancer Discovery"
-    image: "publications/the-spatial-landscape-of-progression-and-immunoediting-in-primary-melanoma-at-single-cell-resolution_v2.png"
-    link: "publications#the-spatial-landscape-of-progression-and-immunoediting-in-primary-melanoma-at-single-cell-resolution"
-    label: Publication  # [Publication|Software|Method]
-    target: "_self"  # [_self|_blank]
-    link2: "#"
-    label2: Software  # [Publication|Software|Method]
-    target2: "_self"  # [_self|_blank]
-  - title: "MCMICRO: A multiple-choice microscopy pipeline"
-    description: "An end-to-end processing pipeline for multiplexed whole tissue imaging and tissue microarrays."
-    author:
-    year:
-    publication:
-    image: "news/mcmicro.jpg"
-    link: https://doi.org/10.1038/s41592-021-01308-y
-    label: Publication
-    target: "_blank"
-    link2: "software#mcmicro"
-    label2: Software  # [Publication|Software|Method]
-    target2: "_self"  # [_self|_blank]

_layouts/home.html

@@ -21,6 +21,20 @@ <h1>{{ page['hero text'] }}</h1>
 
         {{ content }}
 
+        {% assign cards = site.data.announcements.atlas_news %}
+        {% assign cta_url = 'atlases' | relative_url %}
+        {% assign cta_label = 'Explore all atlases' %}
+
+        {% include cards.html
+            heading='Atlases'
+            cards=cards
+            card-type='news-card'
+            card-color='medium-blue'
+            cta-url=cta_url
+            cta-label=cta_label
+            extra-margins=true
+        %}
+
         {% assign cards = site.data.announcements.news_press %}
 
         {% include cards.html
@@ -31,7 +45,6 @@ <h1>{{ page['hero text'] }}</h1>
             extra-margins=true
         %}
 
-
         {% assign cards = site.data.announcements.publications_software %}
         {% assign cta_url = 'publications' | relative_url %}
         {% assign cta_label = 'View all publications' %}
@@ -55,12 +68,12 @@ <h1>{{ page['hero text'] }}</h1>
         {% assign cta_label = 'View Atlases' %}
 
         {% include cards.html
-            heading='Featured Atlas/Data'
+            heading='Featured Data Explorations'
             featured=true
             cta-url=cta_url
             cta-label=cta_label
             extra-margins=true
         %}
 
-    </div>
+  </div>
 </div>

_pages/learn.md

@@ -7,7 +7,7 @@ layout: secondary
 ---
 # Learn Overview
 
-A major challenge in the use and interpretation of highly multiplexed imaging data is that the methods for collecting and analyzing these data are new and rapidly evolving and publications lag well behind the state of the art. For individuals involved in functional genomics, tissue imaging will appear unfamiliar up until the stage at which features of individual cells are generated to create cell x feature tables; however, these tables capture only part of the information in an image. For individuals who are familiar with tissue biology and histology, the scale and complexity of whole-slide high-plex image data require learning new software tools and data analysis approaches.
+A major challenge in the use and interpretation of highly multiplexed imaging data is that the methods for collecting and analyzing these data are new and rapidly evolving and publications lag behind the state of the art. For individuals involved in functional genomics, tissue imaging will appear unfamiliar up until the stage at which features of individual cells are generated to create cell x feature tables; however, these tables capture only part of the information in an image. For individuals who are familiar with tissue biology and histology, the scale and complexity of whole-slide high-plex image data require learning new software tools and data analysis approaches.
 
 The LEARN section of the HTA website houses curated resources for learning and adopting multiplex tissue imaging and the infrastructure that supports it. Each section contains educational and training materials that are designed with a different goal.