Merge pull request #1197 from monarch-initiative/issue-1141-publications

Display Latest Publications First on Publications Page for monarchinitiative.org

Author: varun-divya

frontend/src/pages/aboutV2/PagePublications.vue

@@ -5,21 +5,19 @@
     title="Monarch Publications"
     class="publications"
   />
-  <AppSection>
+
+  <!-- Top metadata section: short description + key metrics -->
+  <AppSection width="big">
     <p class="metadata">
-      This list includes papers by the Monarch Team that were foundational to
-      the current Monarch work. The graph below shows the number of citations to
-      Monarch papers over time.
+      The Monarch Initiative maintains a rich and foundational body of
+      publications that trace back to its early days, underscoring how these
+      works have been pivotal in shaping the fields of variant interpretation,
+      knowledge graphs, and disease gene discovery. Committed to open science,
+      Monarch shares much of this work as preprints or in open-access venues,
+      ensuring broad, transparent, and lasting accessibility. Use this page to
+      explore Monarch’s full body of publications.
     </p>
 
-    <Apex
-      class="chart"
-      type="bar"
-      :options="options"
-      :series="[citesPerYear]"
-      height="300px"
-    />
-
     <AppGallery>
       <p v-for="(item, index) in metadata" :key="index" class="metadata">
         <strong>{{ item.name }}</strong>
@@ -29,60 +27,94 @@
     </AppGallery>
   </AppSection>
 
-  <AppSection>
-    <AppHeading>Years</AppHeading>
-    <!-- row of links to year sections -->
-    <p>
-      <template
-        v-for="(group, index) in publications.publications"
-        :key="index"
-      >
-        <AppLink :to="'#year-' + group.year" :replace="true">
-          {{ group.year }}</AppLink
+  <!-- Publications grouped by year with a simple tab UI -->
+  <AppSection width="big">
+    <AppHeading>Publications by Year </AppHeading>
+
+    <div class="tab-container">
+      <div class="tabs" role="tablist" aria-label="Publication years">
+        <div
+          v-for="year in years"
+          :key="year"
+          class="tab-item"
+          :class="{ active: activeYear === year }"
         >
-        <span v-if="index !== publications.publications.length - 1"> · </span>
-      </template>
-    </p>
+          <AppButton
+            :text="year"
+            color="none"
+            :aria-selected="activeYear === year"
+            role="tab"
+            :class="{ active: activeYear === year }"
+            @click="setActiveYear(year)"
+          />
+        </div>
+      </div>
+
+      <!-- Panel shows items for the currently active year -->
+      <div
+        class="citations"
+        role="tabpanel"
+        :aria-labelledby="`tab-${activeYear}`"
+      >
+        <AppGallery>
+          <AppCitation
+            v-for="(publication, idx) in currentGroup.items"
+            :key="idx"
+            :link="publication.link"
+            :title="publication.title"
+            :authors="publication.authors"
+            :details="[publication.journal, publication.issue]"
+          />
+        </AppGallery>
+      </div>
+    </div>
   </AppSection>
 
-  <!-- by year -->
-  <AppSection
-    v-for="(group, index) in publications.publications"
-    :key="index"
-    width="big"
-  >
-    <AppHeading :id="'year-' + group.year">{{ group.year }}</AppHeading>
-    <AppGallery>
-      <AppCitation
-        v-for="(publication, item) in group.items"
-        :key="item"
-        :link="publication.link"
-        :title="publication.title"
-        :authors="publication.authors"
-        :details="[publication.journal, publication.issue]"
-      />
-    </AppGallery>
+  <!-- Citations bar chart (ApexCharts) -->
+  <AppSection>
+    <AppHeading>Yearly Citation Trend </AppHeading>
+    <Apex
+      class="chart"
+      type="bar"
+      :options="options"
+      :series="[citesPerYear]"
+      height="300px"
+    />
   </AppSection>
 </template>
 
 <script setup lang="ts">
-/** https://apexcharts.com/docs/vue-charts/ */
+import { computed, nextTick, onMounted, ref } from "vue";
 import Apex from "vue3-apexcharts";
+import ApexCharts from "apexcharts";
 import type { ApexOptions } from "apexcharts";
 import AppBreadcrumb from "@/components/AppBreadcrumb.vue";
+import AppButton from "@/components/AppButton.vue";
 import AppCitation from "@/components/AppCitation.vue";
+import AppSection from "@/components/AppSection.vue";
 import PageTitle from "@/components/ThePageTitle.vue";
 import publications from "@/data/publications.json";
 
-/** data for chart */
+// Types inferred directly from JSON for safety and IntelliSense
+type PublicationsData = typeof publications;
+type PublicationGroup = PublicationsData["publications"][number];
+const groups = publications.publications as PublicationGroup[];
+const years = computed(() => groups.map((g) => String(g.year)));
+const activeYear = ref<string>(years.value[0] ?? "");
+
+const currentGroup = computed<PublicationGroup>(() => {
+  return groups.find((g) => String(g.year) === activeYear.value) || groups[0];
+});
+
+// Convert the cites_per_year object into [{ x: year, y: count }, ...]
 const citesPerYear = {
   name: "citations",
   data: Object.entries(publications.metadata.cites_per_year).map(
     ([year, count]) => ({ x: year, y: count }),
   ),
 };
 
-/** extra metadata fields */
+// Cards shown above the tabs (keys reference publications.metadata fields)
 const metadata: {
   name: string;
   key: keyof (typeof publications)["metadata"];
@@ -92,17 +124,17 @@ const metadata: {
   { name: "Citations in last 5 years", key: "last_5_yrs" },
 ];
 
-/** chart options */
+/** ----- Base chart options ----- */
 const options: ApexOptions = {
   chart: {
     id: "citations",
     type: "bar",
-    redrawOnParentResize: true,
+    redrawOnParentResize: true, // keep chart responsive inside containers
   },
   title: {
     text: `Monarch Citations`,
   },
-  colors: ["#00acc1"],
+  colors: ["#00acc1"], // single series color
   plotOptions: {
     bar: {
       horizontal: false,
@@ -111,53 +143,141 @@ const options: ApexOptions = {
       },
     },
   },
+  states: {
+    active: {
+      allowMultipleDataPointsSelection: false,
+      filter: { type: "lighten", value: 0.15 },
+    },
+  },
   tooltip: {
-    enabled: false,
+    enabled: false, // declutter; rely on selection highlight
   },
   xaxis: {
-    title: {
-      text: "Year",
-    },
-    axisBorder: {
-      color: "#000000",
-    },
-    axisTicks: {
-      show: true,
-      color: "#000000",
-    },
+    title: { text: "Year" },
+    axisBorder: { color: "#000000" },
+    axisTicks: { show: true, color: "#000000" },
   },
   yaxis: {
-    title: {
-      text: "# of Citations",
-    },
-    axisBorder: {
-      color: "#000000",
-    },
-    axisTicks: {
-      show: true,
-      color: "#000000",
-    },
+    title: { text: "# of Citations" },
+    axisBorder: { color: "#000000" },
+    axisTicks: { show: true, color: "#000000" },
   },
   grid: {
-    xaxis: {
-      lines: {
-        show: false,
-      },
-    },
-    yaxis: {
-      lines: {
-        show: false,
-      },
-    },
+    xaxis: { lines: { show: false } },
+    yaxis: { lines: { show: false } },
   },
 };
+
+/**
+ * Update activeYear and mirror the selection on the bar chart for context. We
+ * clear any previous selection and then select the data point at index
+ * `dataPointIndex`.
+ */
+function setActiveYear(year: string) {
+  activeYear.value = year;
+  nextTick(() => {
+    const dataPointIndex = citesPerYear.data.findIndex(
+      (item) => String(item.x) === year,
+    );
+    if (dataPointIndex >= 0) {
+      ApexCharts.exec("citations", "clearSelectedDataPoints");
+      ApexCharts.exec(
+        "citations",
+        "toggleDataPointSelection",
+        0,
+        dataPointIndex,
+      );
+    }
+  });
+}
+
+// Initialize selection on mount so the default tab and the chart match
+onMounted(() => setActiveYear(activeYear.value));
 </script>
 
 <style scoped lang="scss">
+.section.center {
+  padding-bottom: 10px;
+}
+
 .metadata {
-  text-align: center;
+  text-align: left;
 }
 .publications {
   background-color: #ffffff;
 }
+
+.tab-container {
+  display: flex;
+  flex-direction: column;
+  align-items: center;
+  width: 100%;
+  margin: 0 auto;
+  padding: 1rem;
+  gap: 1.5em;
+}
+
+.tabs {
+  display: flex;
+  width: 100%;
+  margin-bottom: 1rem;
+  overflow-x: auto;
+  gap: 0.3rem;
+  border-bottom: 3px solid $theme;
+  background-color: #fff;
+}
+
+.tab-item {
+  display: flex;
+  flex-direction: column;
+  align-items: center;
+  text-align: center;
+}
+
+.tab-item.active {
+  border: 1px solid #ccc;
+  border-bottom: 0;
+  background-color: #008080;
+  color: #fff;
+}
+
+/* Ensure AppButton text remains readable in active tab */
+.tab-item.active :deep(.button) {
+  color: #fff !important;
+}
+
+.tab-item:not(.active) {
+  border: 1px solid transparent;
+  border-bottom: 0;
+  background-color: #f5f5f5;
+}
+
+:deep(.button) {
+  width: 100%;
+  border: none;
+  background-color: transparent;
+  font-weight: bold;
+  cursor: pointer;
+  &:hover,
+  &:focus {
+    outline: none !important;
+    box-shadow: none !important;
+  }
+}
+
+.citations {
+  max-height: 32rem;
+  overflow-x: hidden;
+  overflow-y: auto;
+  scrollbar-color: $theme;
+  scrollbar-gutter: stable both-edges;
+  scrollbar-width: thin;
+}
+
+/* Subtle dark-mode contrast for the custom scrollbar colors */
+@media (prefers-color-scheme: dark) {
+  .citations {
+    scrollbar-color: rgba(0, 200, 200, 0.7) rgba(255, 255, 255, 0.08);
+  }
+}
 </style>