From 4cb8d84db62fd9f87c0a825be1e7daf936729f77 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@gmail.com>
Date: Mon, 18 May 2020 23:43:51 -0500
Subject: [PATCH] Add cellxgene
---
content/sc.data/cellxgene_2018CellReports.md | 13 +++++++
.../sc.data/cellxgene_2020Prostate.PdPgb.md | 13 +++++++
.../sc.data/cellxgene_2020Prostate.muPrUr.md | 13 +++++++
content/sc.data/cellxgene_hu.Pd.deep.md | 9 +++--
content/sc.data/hu.Pd.deep.md | 4 +-
layouts/custom/cellxgene.html | 38 +++++++++++++++++++
layouts/custom/cellxgene_hu.Pd.deep.html | 22 -----------
layouts/custom/sc.data.html | 1 +
8 files changed, 85 insertions(+), 28 deletions(-)
create mode 100644 content/sc.data/cellxgene_2018CellReports.md
create mode 100644 content/sc.data/cellxgene_2020Prostate.PdPgb.md
create mode 100644 content/sc.data/cellxgene_2020Prostate.muPrUr.md
create mode 100644 layouts/custom/cellxgene.html
delete mode 100644 layouts/custom/cellxgene_hu.Pd.deep.html
diff --git a/content/sc.data/cellxgene_2018CellReports.md b/content/sc.data/cellxgene_2018CellReports.md
new file mode 100644
index 0000000..6be3f18
--- /dev/null
+++ b/content/sc.data/cellxgene_2018CellReports.md
@@ -0,0 +1,13 @@
+---
+title: "Human Normal Prostate"
+description: "As published in 2018 Cell Reports (cellxgene: in development)"
+name: "Human Normal Prostate: As published in 2018 Cell Reports"
+date: 2019-12-24T21:46:39-06:00
+draft: false
+weight: "2"
+type: "custom"
+layout: "cellxgene"
+current: false
+location: "PublishedData/2018CellReports/2018CellReports_huPr_all"
+---
+
diff --git a/content/sc.data/cellxgene_2020Prostate.PdPgb.md b/content/sc.data/cellxgene_2020Prostate.PdPgb.md
new file mode 100644
index 0000000..96643b7
--- /dev/null
+++ b/content/sc.data/cellxgene_2020Prostate.PdPgb.md
@@ -0,0 +1,13 @@
+---
+title: "Human Normal and BPH Prostate Epithelia"
+description: ": As published in 2020 Prostate (cellxgene: in development)"
+name: "Human Normal and BPH Prostate Epithelia: As published in 2020 Prostate"
+date: 2019-12-24T21:46:39-06:00
+draft: false
+weight: "3"
+type: "custom"
+layout: "cellxgene"
+current: false
+location: "PublishedData/2020Prostate/2020Prostate_huPr_PdPgb_epi"
+---
+
diff --git a/content/sc.data/cellxgene_2020Prostate.muPrUr.md b/content/sc.data/cellxgene_2020Prostate.muPrUr.md
new file mode 100644
index 0000000..7818d62
--- /dev/null
+++ b/content/sc.data/cellxgene_2020Prostate.muPrUr.md
@@ -0,0 +1,13 @@
+---
+title: "Mouse Prostate and Urethral Epithelia"
+description: "As published in 2020 Prostate (cellxgene: in development)"
+name: "Mouse Prostate and Urethral Epithelia: As published in 2020 Cell Reports"
+date: 2019-12-24T21:46:39-06:00
+draft: false
+weight: "4"
+type: "custom"
+layout: "cellxgene"
+current: false
+location: "PublishedData/2020Prostate/2020Prostate_muPrUr_epi"
+---
+
diff --git a/content/sc.data/cellxgene_hu.Pd.deep.md b/content/sc.data/cellxgene_hu.Pd.deep.md
index 3bf74f3..9f6638d 100644
--- a/content/sc.data/cellxgene_hu.Pd.deep.md
+++ b/content/sc.data/cellxgene_hu.Pd.deep.md
@@ -1,12 +1,13 @@
---
-title: "Human Donor Prostate (cellxgene)"
-description: "Single-Cell RNA-sequencing Data"
-name: "Human Donor Prostate (cellxgene)"
+title: "Human Normal Prostate"
+description: "Deep Sequencing (cellxgene: in development)"
+name: "Human Normal Prostate: Deep Sequencing"
date: 2019-12-24T21:46:39-06:00
draft: false
weight: "1"
type: "custom"
-layout: "cellxgene_hu.Pd.deep"
+layout: "cellxgene"
current: false
+location: "huPr_DEEP/huPr_Pd_all"
---
diff --git a/content/sc.data/hu.Pd.deep.md b/content/sc.data/hu.Pd.deep.md
index 839547c..1df059c 100644
--- a/content/sc.data/hu.Pd.deep.md
+++ b/content/sc.data/hu.Pd.deep.md
@@ -1,7 +1,7 @@
---
-title: "Human Donor Prostate"
+title: "Human Normal Prostate"
description: "Single-Cell RNA-sequencing Data"
-name: "Human Donor Prostate"
+name: "Human Normal Prostate"
date: 2019-12-24T21:46:39-06:00
draft: false
weight: "1"
diff --git a/layouts/custom/cellxgene.html b/layouts/custom/cellxgene.html
new file mode 100644
index 0000000..e98c323
--- /dev/null
+++ b/layouts/custom/cellxgene.html
@@ -0,0 +1,38 @@
+{{ partial "header.html" . }}
+
+<div class="header">
+ <h1>{{ .Title }}</h1>
+ <h2>{{ .Description }}</h2>
+</div>
+
+<style>
+ .cellxgene {
+ margin: 0 auto;
+ padding: 0 2em;
+ max-width: 1650px;
+ height: 730px;
+ margin-bottom: 50px;
+ }
+ .no-cellxgene{
+ display: none;
+ }
+@media only screen and (max-width: 1500px) {
+ .cellxgene{
+ display: none;
+ }
+ .no-cellxgene{
+ margin: 0 auto;
+ padding: 0 2em;
+ margin-bottom: 50px;
+ display: inherit;
+ }
+}
+</style>
+<div class="cellxgene">
+ <iframe name="embed" src="http://52.15.203.98:5005/view/{{ .Params.location }}.h5ad/" width="100%" height="100%" frameborder="0" allowfullscreen="" ></iframe>
+</div>
+<div class="no-cellxgene">
+ <h2>Screen width too narrow to display cellxgene</h1>
+</div>
+
+{{ partial "footer.html" . }}
\ No newline at end of file
diff --git a/layouts/custom/cellxgene_hu.Pd.deep.html b/layouts/custom/cellxgene_hu.Pd.deep.html
deleted file mode 100644
index 9442764..0000000
--- a/layouts/custom/cellxgene_hu.Pd.deep.html
+++ /dev/null
@@ -1,22 +0,0 @@
-{{ partial "header.html" . }}
-
-<div class="header">
- <h1>{{ .Title }}</h1>
- <h2>{{ .Description }}</h2>
-</div>
-
-<style>
-.contents {
- margin: 0 auto;
- padding: 0 2em;
- max-width: 800px;
- height: 1000px;
- margin-bottom: 50px;
- line-height: 1.6em;
-}
-</style>
-<div class="contents">
- <iframe name="cellxgene-gateway" src="http://198.215.54.107:5005/view/StrandLab/huPr_DEEP/huPr_Pd_all.h5ad/" style="padding: 35px" width="100%" height="100%" frameborder="0" allowfullscreen="" ></iframe>
-</div>
-
-{{ partial "footer.html" . }}
\ No newline at end of file
diff --git a/layouts/custom/sc.data.html b/layouts/custom/sc.data.html
index 6e0dc9b..d45a0c4 100644
--- a/layouts/custom/sc.data.html
+++ b/layouts/custom/sc.data.html
@@ -57,6 +57,7 @@
<br>
<hr>
<br>
+ <h3 style="text-align: center">CZI cellxgene (with Novartis' cellxgene-gateway) for data exploration (in development)</h3>
{{ range where .Pages.ByWeight "Params.current" false }}
<li><i><a href="{{.Permalink}}">{{.Params.name}}</a></i></li>
{{ end }}
--
GitLab