diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index 1b510c513e3260dc1e1b1a90afb8ca1ea5d76f3f..a4b65b1706e50cfc21aa1d1ab931a36055fd1438 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -16,8 +16,8 @@ build:
deploy:
script:
- singularity run 'docker://monachus/hugo' hugo
- - singularity run 'docker://monachus/hugo' hugo deploy aws --maxDeletes -1
- - aws s3 ls s3://www.strandlab.net/ --recursive | awk '{cmd="aws s3api put-object-acl --acl bucket-owner-full-control --bucket www.strandlab.net --key "$4; system(cmd)}'
+## - singularity run 'docker://monachus/hugo' hugo deploy aws --maxDeletes -1
+## - aws s3 ls s3://www.strandlab.net/ --recursive | awk '{cmd="aws s3api put-object-acl --acl bucket-owner-full-control --bucket www.strandlab.net --key "$4; system(cmd)}'
artifacts:
paths:
- public
diff --git a/config.toml b/config.toml
index 4acf35bf27ece8e8748ff06b7b76b8692ff73c0c..d9989e80a6c87568637b37c4e94c5bd3b7db19d8 100644
--- a/config.toml
+++ b/config.toml
@@ -1,4 +1,4 @@
-baseurl = "http://www.strandlab.net.s3-website.us-east-2.amazonaws.com/"
+baseurl = "http://www.strandlab.net"
title = "Strand Lab"
author = "Gervaise H. Henry"
theme = "blackburn"
diff --git a/data/repository/filters.json b/data/repository/filters.json
index 633c958ee781bb83860c30e2bd984929e2f886f1..e948f0959834836eff25095990e3fb879c571bed 100644
--- a/data/repository/filters.json
+++ b/data/repository/filters.json
@@ -1,66 +1,66 @@
-[
- {"id": "disease", "parent": "#", "text": "Disease Phenotype", "a_attr": { "class": "no_checkbox" }, "disabled": true},
- {"id": "disease.d", "parent":"disease", "text": "Donor (normal)"},
- {"id": "disease.b", "parent":"disease", "text": "BPH"},
- {"id": "disease.c", "parent":"disease", "text": "Prostate Cancer"},
- {"id": "demographics", "parent": "#", "text": "Demographics", "a_attr": { "class": "no_checkbox" }, "disabled": true},
- {"id": "ethnicity", "parent":"demographics", "text": "Ethnicity", "a_attr": { "class": "no_checkbox" }, "disabled": true},
- {"id": "ethn.aa", "parent":"ethnicity", "text": "African American"},
- {"id": "ethn.as", "parent":"ethnicity", "text": "Asian"},
- {"id": "ethn.ca", "parent":"ethnicity", "text": "Caucasian"},
- {"id": "ethn.hi", "parent":"ethnicity", "text": "Hispanic"},
- {"id": "ethn.uk", "parent":"ethnicity", "text": "Unknown Ethnicity"},
- {"id": "age", "parent":"demographics", "text": "Age", "a_attr": { "class": "no_checkbox" }, "disabled": true},
- {"id": "age.40", "parent":"age", "text": "<40yo"},
- {"id": "age.50", "parent":"age", "text": "41-50yo"},
- {"id": "age.60", "parent":"age", "text": "51-60yo"},
- {"id": "age.70", "parent":"age", "text": "61-70yo"},
- {"id": "age.80", "parent":"age", "text": "71-80yo"},
- {"id": "age.90", "parent":"age", "text": "81-90yo"},
- {"id": "age.100", "parent":"age", "text": "91+yo"},
- {"id": "age.uk", "parent":"age", "text": "Unknown Age"},
- {"id": "clinical", "parent":"#", "text": "Clinical Features", "a_attr": { "class": "no_checkbox" }, "disabled": true},
- {"id": "bmi", "parent":"clinical", "text": "BMI", "a_attr": { "class": "no_checkbox" }, "disabled": true},
- {"id": "bmi.uw", "parent":"bmi", "text": "Underweight"},
- {"id": "bmi.nw", "parent":"bmi", "text": "Normal"},
- {"id": "bmi.ow", "parent":"bmi", "text": "Overweight"},
- {"id": "bmi.ob", "parent":"bmi", "text": "Obese"},
- {"id": "bmi.vo", "parent":"bmi", "text": "Very Obese"},
- {"id": "bmi.so", "parent":"bmi", "text": "Severely Obese"},
- {"id": "bmi.uk", "parent":"bmi", "text": "Unknown BMI"},
- {"id": "t2d", "parent":"clinical", "text": "Type 2 Diabetes", "a_attr": { "class": "no_checkbox" }, "disabled": true},
- {"id": "t2d.y", "parent":"t2d", "text": "Yes"},
- {"id": "t2d.n", "parent":"t2d", "text": "No"},
- {"id": "t2d.uk", "parent":"t2d", "text": "Unknown"},
- {"id": "bph", "parent":"clinical", "text": "BPH Features", "a_attr": { "class": "no_checkbox" }, "disabled": true},
- {"id": "bphsurgery", "parent":"bph", "text": "BPH Surgery", "a_attr": { "class": "no_checkbox" }, "disabled": true},
- {"id": "bphsurg.simp", "parent":"bphsurgery", "text": "Simple Prostatectomy"},
- {"id": "bphsurg.turp", "parent":"bphsurgery", "text": "TURP"},
- {"id": "bphsurg.uk", "parent":"bphsurgery", "text": "Unknown Surgery"},
- {"id": "5ari", "parent":"bph", "text": "5ARI", "a_attr": { "class": "no_checkbox" }, "disabled": true},
- {"id": "5ari.y", "parent":"5ari", "text": "Yes 5ARI"},
- {"id": "5ari.n", "parent":"5ari", "text": "No 5ARI"},
- {"id": "5ari.uk", "parent":"5ari", "text": "Unknown 5ARI"},
- {"id": "5aril", "parent":"bph", "text": "5ARI Length (months)", "a_attr": { "class": "no_checkbox" }, "disabled": true},
- {"id": "5aril.10", "parent":"5aril", "text": "<10mnths 5ARI"},
- {"id": "5aril.20", "parent":"5aril", "text": "10-20mnths 5ARI"},
- {"id": "5aril.30", "parent":"5aril", "text": "20+mnths 5ARI"},
- {"id": "5aril.uk", "parent":"5aril", "text": "Unknown 5ARI"},
- {"id": "5aril.na", "parent":"5aril", "text": "NA 5ARI"},
- {"id": "prostatevol", "parent":"clinical", "text": "Prostate Volume", "a_attr": { "class": "no_checkbox" }, "disabled": true},
- {"id": "prvol.low", "parent":"prostatevol", "text": "Low Volumne"},
- {"id": "prvol.med", "parent":"prostatevol", "text": "Medium Volume"},
- {"id": "prvol.hi", "parent":"prostatevol", "text": "High Volume"},
- {"id": "prvol.vhi", "parent":"prostatevol", "text": "Very High Volume"},
- {"id": "prvol.uk", "parent":"prostatevol", "text": "Unknown Volume"},
- {"id": "repo", "parent":"#", "text": "Repository", "a_attr": { "class": "no_checkbox" }, "disabled": true},
- {"id": "repo.pr", "parent":"repo", "text": "Prostate", "a_attr": { "class": "no_checkbox" }, "disabled": true},
- {"id": "repo.pr.cry", "parent":"repo.pr", "text": "Pr Cryopreserved Cells"},
- {"id": "repo.pr.ff", "parent":"repo.pr", "text": "Pr Flash Frozen Tissue"},
- {"id": "repo.pr.ffpe", "parent":"repo.pr", "text": "Pr FFPE"},
- {"id": "repo.pr.oct", "parent":"repo.pr", "text": "Pr OCT"},
- {"id": "repo.bl", "parent":"repo", "text": "Bladder"},
- {"id": "repo.sv", "parent":"repo", "text": "Seminal Vesicle"},
- {"id": "repo.vd", "parent":"repo", "text": "Vas Deferencec"},
- {"id": "repo.ut", "parent":"repo", "text": "Ureter"}
+[
+ {"id": "disease", "parent": "#", "text": "Disease Phenotype", "a_attr": { "class": "no_checkbox" }, "disabled": true},
+ {"id": "disease.d", "parent":"disease", "text": "Donor (normal)"},
+ {"id": "disease.b", "parent":"disease", "text": "BPH"},
+ {"id": "disease.c", "parent":"disease", "text": "Prostate Cancer"},
+ {"id": "demographics", "parent": "#", "text": "Demographics", "a_attr": { "class": "no_checkbox" }, "disabled": true},
+ {"id": "ethnicity", "parent":"demographics", "text": "Ethnicity", "a_attr": { "class": "no_checkbox" }, "disabled": true},
+ {"id": "ethn.aa", "parent":"ethnicity", "text": "African American"},
+ {"id": "ethn.as", "parent":"ethnicity", "text": "Asian"},
+ {"id": "ethn.ca", "parent":"ethnicity", "text": "Caucasian"},
+ {"id": "ethn.hi", "parent":"ethnicity", "text": "Hispanic"},
+ {"id": "ethn.uk", "parent":"ethnicity", "text": "Unknown Ethnicity"},
+ {"id": "age", "parent":"demographics", "text": "Age", "a_attr": { "class": "no_checkbox" }, "disabled": true},
+ {"id": "age.40", "parent":"age", "text": "<40yo"},
+ {"id": "age.50", "parent":"age", "text": "41-50yo"},
+ {"id": "age.60", "parent":"age", "text": "51-60yo"},
+ {"id": "age.70", "parent":"age", "text": "61-70yo"},
+ {"id": "age.80", "parent":"age", "text": "71-80yo"},
+ {"id": "age.90", "parent":"age", "text": "81-90yo"},
+ {"id": "age.100", "parent":"age", "text": "91+yo"},
+ {"id": "age.uk", "parent":"age", "text": "Unknown Age"},
+ {"id": "clinical", "parent":"#", "text": "Clinical Features", "a_attr": { "class": "no_checkbox" }, "disabled": true},
+ {"id": "bmi", "parent":"clinical", "text": "BMI", "a_attr": { "class": "no_checkbox" }, "disabled": true},
+ {"id": "bmi.uw", "parent":"bmi", "text": "Underweight"},
+ {"id": "bmi.nw", "parent":"bmi", "text": "Normal"},
+ {"id": "bmi.ow", "parent":"bmi", "text": "Overweight"},
+ {"id": "bmi.ob", "parent":"bmi", "text": "Obese"},
+ {"id": "bmi.vo", "parent":"bmi", "text": "Very Obese"},
+ {"id": "bmi.so", "parent":"bmi", "text": "Severely Obese"},
+ {"id": "bmi.uk", "parent":"bmi", "text": "Unknown BMI"},
+ {"id": "t2d", "parent":"clinical", "text": "Type 2 Diabetes", "a_attr": { "class": "no_checkbox" }, "disabled": true},
+ {"id": "t2d.y", "parent":"t2d", "text": "Yes"},
+ {"id": "t2d.n", "parent":"t2d", "text": "No"},
+ {"id": "t2d.uk", "parent":"t2d", "text": "Unknown"},
+ {"id": "bph", "parent":"clinical", "text": "BPH Features", "a_attr": { "class": "no_checkbox" }, "disabled": true},
+ {"id": "bphsurgery", "parent":"bph", "text": "BPH Surgery", "a_attr": { "class": "no_checkbox" }, "disabled": true},
+ {"id": "bphsurg.simp", "parent":"bphsurgery", "text": "Simple Prostatectomy"},
+ {"id": "bphsurg.turp", "parent":"bphsurgery", "text": "TURP"},
+ {"id": "bphsurg.uk", "parent":"bphsurgery", "text": "Unknown Surgery"},
+ {"id": "5ari", "parent":"bph", "text": "5ARI", "a_attr": { "class": "no_checkbox" }, "disabled": true},
+ {"id": "5ari.y", "parent":"5ari", "text": "Yes 5ARI"},
+ {"id": "5ari.n", "parent":"5ari", "text": "No 5ARI"},
+ {"id": "5ari.uk", "parent":"5ari", "text": "Unknown 5ARI"},
+ {"id": "5aril", "parent":"bph", "text": "5ARI Length (months)", "a_attr": { "class": "no_checkbox" }, "disabled": true},
+ {"id": "5aril.10", "parent":"5aril", "text": "<10mnths 5ARI"},
+ {"id": "5aril.20", "parent":"5aril", "text": "10-20mnths 5ARI"},
+ {"id": "5aril.30", "parent":"5aril", "text": "20+mnths 5ARI"},
+ {"id": "5aril.uk", "parent":"5aril", "text": "Unknown 5ARI"},
+ {"id": "5aril.na", "parent":"5aril", "text": "NA 5ARI"},
+ {"id": "prostatevol", "parent":"clinical", "text": "Prostate Volume", "a_attr": { "class": "no_checkbox" }, "disabled": true},
+ {"id": "prvol.low", "parent":"prostatevol", "text": "Low Volumne"},
+ {"id": "prvol.med", "parent":"prostatevol", "text": "Medium Volume"},
+ {"id": "prvol.hi", "parent":"prostatevol", "text": "High Volume"},
+ {"id": "prvol.vhi", "parent":"prostatevol", "text": "Very High Volume"},
+ {"id": "prvol.uk", "parent":"prostatevol", "text": "Unknown Volume"},
+ {"id": "repo", "parent":"#", "text": "Repository", "a_attr": { "class": "no_checkbox" }, "disabled": true},
+ {"id": "repo.pr", "parent":"repo", "text": "Prostate", "a_attr": { "class": "no_checkbox" }, "disabled": true},
+ {"id": "repo.pr.cry", "parent":"repo.pr", "text": "Pr Cryopreserved Cells"},
+ {"id": "repo.pr.ff", "parent":"repo.pr", "text": "Pr Flash Frozen Tissue"},
+ {"id": "repo.pr.ffpe", "parent":"repo.pr", "text": "Pr FFPE"},
+ {"id": "repo.pr.oct", "parent":"repo.pr", "text": "Pr OCT"},
+ {"id": "repo.bl", "parent":"repo", "text": "Bladder"},
+ {"id": "repo.sv", "parent":"repo", "text": "Seminal Vesicle"},
+ {"id": "repo.vd", "parent":"repo", "text": "Vas Deference"},
+ {"id": "repo.ut", "parent":"repo", "text": "Ureter"}
]
\ No newline at end of file
diff --git a/layouts/custom/hu.donor.deep.html b/layouts/custom/hu.donor.deep.html
index e17ede49fc43a8496b6abdfd219471b65d069eef..614708e4fb63e46dc4ebc45d5307248db1ea7d3b 100644
--- a/layouts/custom/hu.donor.deep.html
+++ b/layouts/custom/hu.donor.deep.html
@@ -1,191 +1,191 @@
-{{ partial "header.html" . }}
-
-<div class="header">
- <h1>{{ .Title }}</h1>
- <h2>{{ .Description }}</h2>
-</div>
-<div class="content">
- {{ .Content }}
-</div>
-
-<style>
- .content {
- margin: 0;
- max-width: none;
- }
-
- .select {
- float: top;
- z-index: 1;
- top: 0px;
- background: #191818;
- overflow-x: hidden;
- padding: 8px 10px;
- }
-
- .columnS {
- float: left;
- text-align: center;
- width: 50%;
- }
-
- .columnF {
- float: left;
- text-align: center;
- width: 33.33%;
- }
-
- .row:after {
- content: "";
- display: table;
- clear: both;
- }
-
- img {
- max-width: 100%;
- height: auto;
- }
-
- @media (max-width: 1000px) {
- .columnS {
- text-align: right;
- width: 100%;
- }
-
- .columnF {
- width: 100%;
- }
-
- br {
- display: none;
- }
- }
-</style>
-
-<div class="content">
- <div class="select">
- <div class="columnS ui-widget">
- <label for="gene" style="font-family:sans-serif; font-size:18px;"><b>Gene:</b></label>
- <br>
- <input id="gene" size="19">
- </div>
- <div class="columnS">
- <label for="populations" style="font-size:18px;">
- <b>Select a group of cell populations:</b>
- </label>
- <br>
- <select name="populations" id="populations">
- <option selected="selected" value="Population"> Cell Populations</option>
- <option>Lineage</option>
- <option value="Zone">Prostatic Zone</option>
- <option>Patient</option>
- </select>
- </div>
- <br>
- <div style="text-align:center">
- <button type="submit" id="analysis" class="btn btn-primary">Run Analysis</button>
- </div>
- <hr>
- <div>
- <span style="font-size:16px; font-weight:bold;">Experimental details:</span>
- <br>
- <span style="font-size:16px;">
- Single Cell RNA-Sequencing was conducted on 32,194 cells from peripheral zone and transition zone from
- the prostate of three 18-38 year old organ donors using the 10x Genomics platform. The cells were
- clustered and identified by correlation of their transcriptomes to known cell types. Gene expression can
- be compared by population identity, cell lineage, patient, or dissected prostatic zone. This data is the
- result of additional sequencing done on the same samples post publication, and projected in UMAP space.
- </span>
- </div>
- </div>
- <div align="center">
- <h1 id="label.gene">NO GENE SELECTED</h1>
- <h2 id="label.populations"></h2>
- <div class="columnF">
- <h4 id="label.ClusterVis">
- </h3>
- <div class="img">
- <img id="img.ClusterVis" src="" />
- </div>
- <br>
- </div>
- <div class="columnF">
- <h4 id="label.Feature">
- </h3>
- <div class="img">
- <img id="img.Feature" src="" />
- </div>
- <br>
- </div>
- <div class="columnF">
- <h4 id="label.ViolinBox">
- </h3>
- <div class="img">
- <img id="img.ViolinBox" src="" />
- </div>
- <br>
- </div>
- </div>
- <hr>
- <div align="left">
- <div><span style="font-size:18px; font-weight:bold;">Publication found at:</span></div>
- <div><span style="font-size:16px;"> <a href="https://www.ncbi.nlm.nih.gov/pubmed/?term=30566875"
- target="_blank">Cell Reports</a></span></div>
- <div><span style="font-size:18px; font-weight:bold;">Raw data found at:</span></div>
- <div><span style="font-size:16px;"> <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE117403"
- target="_blank">GEO:
- GSE117403</a></span></div>
- <div><span style="font-size:16px;"><a href="https://doi.org/10.25548/W-R8CM" target="_blank">GUDMAP:
- W-R8CM</a></span></div>
- </div>
-</div>
-
-{{ partial "footer.html" . }}
-
-<head>
- <link rel="stylesheet" href="https://ajax.googleapis.com/ajax/libs/jqueryui/1.12.1/themes/smoothness/jquery-ui.css">
- <script src="https://ajax.googleapis.com/ajax/libs/jquery/3.4.1/jquery.min.js"></script>
- <script src="https://ajax.googleapis.com/ajax/libs/jqueryui/1.12.1/jquery-ui.min.js"></script>
- <style>
- .ui-autocomplete {
- max-height: 200px;
- overflow-y: auto;
- overflow-x: hidden;
- }
- </style>
- <script>
- $(function () {
- $("#populations").selectmenu({ width: 230 });
- });
- $(function () {
- var genes = {{ index .Site.Data.sc_data.hu_donor_pr_deep.genes }};
- var selectedGene = $("#gene").autocomplete({
- source: genes.genes,
- maxResults: 10,
- maxShowItems: 10,
- minLength: 1,
- });
- });
- $("#analysis").click(function (event) {
- event.preventDefault();
- var genes = {{ index .Site.Data.sc_data.hu_donor_pr_deep.genes }};
- _gene = $("#gene").val().toUpperCase();
- if ($.inArray(_gene, genes.genes) < 0) {
- alert("Gene " + _gene + " not exist in the data.")
- return
- }
- document.getElementById("label.gene").innerHTML = _gene
- document.getElementById("label.populations").innerHTML = "Separated by " + $("#populations").val().toUpperCase()
- document.getElementById("label.ClusterVis").innerHTML = "Cluster Visualization"
- var img = document.getElementById("img.ClusterVis");
- img.src = "https://s3.us-east-2.amazonaws.com/images.gse117403.deep/images/" + $("#populations").val() + "/umap.png"
- document.getElementById("label.Feature").innerHTML = "Feature Plot"
- var img = document.getElementById("img.Feature");
- img.src = "https://s3.us-east-2.amazonaws.com/images.gse117403.deep/images/umap/" + "genes/" + _gene + "_1.png"
- document.getElementById("label.ViolinBox").innerHTML = "Violin Box Plot"
- var img = document.getElementById("img.ViolinBox");
- img.src = "https://s3.us-east-2.amazonaws.com/images.gse117403.deep/images/ViolinBox/" + $("#populations").val() + "/genes/" + _gene + "_1.png"
- return (_gene)
- });
- </script>
+{{ partial "header.html" . }}
+
+<div class="header">
+ <h1>{{ .Title }}</h1>
+ <h2>{{ .Description }}</h2>
+</div>
+<div class="content">
+ {{ .Content }}
+</div>
+
+<style>
+ .content {
+ margin: 0;
+ max-width: none;
+ }
+
+ .select {
+ float: top;
+ z-index: 1;
+ top: 0px;
+ background: #191818;
+ overflow-x: hidden;
+ padding: 8px 10px;
+ }
+
+ .columnS {
+ float: left;
+ text-align: center;
+ width: 50%;
+ }
+
+ .columnF {
+ float: left;
+ text-align: center;
+ width: 33.33%;
+ }
+
+ .row:after {
+ content: "";
+ display: table;
+ clear: both;
+ }
+
+ img {
+ max-width: 100%;
+ height: auto;
+ }
+
+ @media (max-width: 1000px) {
+ .columnS {
+ text-align: right;
+ width: 100%;
+ }
+
+ .columnF {
+ width: 100%;
+ }
+
+ br {
+ display: none;
+ }
+ }
+</style>
+
+<div class="content">
+ <div class="select">
+ <div class="columnS ui-widget">
+ <label for="gene" style="font-family:sans-serif; font-size:18px;"><b>Gene:</b></label>
+ <br>
+ <input id="gene" size="19">
+ </div>
+ <div class="columnS">
+ <label for="populations" style="font-size:18px;">
+ <b>Select a group of cell populations:</b>
+ </label>
+ <br>
+ <select name="populations" id="populations">
+ <option selected="selected" value="Population"> Cell Populations</option>
+ <option>Lineage</option>
+ <option value="Zone">Prostatic Zone</option>
+ <option>Patient</option>
+ </select>
+ </div>
+ <br>
+ <div style="text-align:center">
+ <button type="submit" id="analysis" class="btn btn-primary">Run Analysis</button>
+ </div>
+ <hr>
+ <div>
+ <span style="font-size:16px; font-weight:bold;">Experimental details:</span>
+ <br>
+ <span style="font-size:16px;">
+ Single Cell RNA-Sequencing was conducted on 32,194 cells from peripheral zone and transition zone from
+ the prostate of three 18-38 year old organ donors using the 10x Genomics platform. The cells were
+ clustered and identified by correlation of their transcriptomes to known cell types. Gene expression can
+ be compared by population identity, cell lineage, patient, or dissected prostatic zone. This data is the
+ result of additional sequencing done on the same samples post publication, and projected in UMAP space.
+ </span>
+ </div>
+ </div>
+ <div align="center">
+ <h1 id="label.gene">NO GENE SELECTED</h1>
+ <h2 id="label.populations"></h2>
+ <div class="columnF">
+ <h4 id="label.ClusterVis">
+ </h3>
+ <div class="img">
+ <img id="img.ClusterVis" src="" />
+ </div>
+ <br>
+ </div>
+ <div class="columnF">
+ <h4 id="label.Feature">
+ </h3>
+ <div class="img">
+ <img id="img.Feature" src="" />
+ </div>
+ <br>
+ </div>
+ <div class="columnF">
+ <h4 id="label.ViolinBox">
+ </h3>
+ <div class="img">
+ <img id="img.ViolinBox" src="" />
+ </div>
+ <br>
+ </div>
+ </div>
+ <hr>
+ <div align="left">
+ <div><span style="font-size:18px; font-weight:bold;">Publication found at:</span></div>
+ <div><span style="font-size:16px;"> <a href="https://www.ncbi.nlm.nih.gov/pubmed/?term=30566875"
+ target="_blank">Cell Reports</a></span></div>
+ <div><span style="font-size:18px; font-weight:bold;">Raw data found at:</span></div>
+ <div><span style="font-size:16px;"> <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE117403"
+ target="_blank">GEO:
+ GSE117403</a></span></div>
+ <div><span style="font-size:16px;"><a href="https://doi.org/10.25548/W-R8CM" target="_blank">GUDMAP:
+ W-R8CM</a></span></div>
+ </div>
+</div>
+
+{{ partial "footer.html" . }}
+
+<head>
+ <link rel="stylesheet" href="https://ajax.googleapis.com/ajax/libs/jqueryui/1.12.1/themes/smoothness/jquery-ui.css">
+ <script src="https://ajax.googleapis.com/ajax/libs/jquery/3.4.1/jquery.min.js"></script>
+ <script src="https://ajax.googleapis.com/ajax/libs/jqueryui/1.12.1/jquery-ui.min.js"></script>
+ <style>
+ .ui-autocomplete {
+ max-height: 200px;
+ overflow-y: auto;
+ overflow-x: hidden;
+ }
+ </style>
+ <script>
+ $(function () {
+ $("#populations").selectmenu({ width: 230 });
+ });
+ $(function () {
+ var genes = {{ index .Site.Data.sc_data.hu_donor_pr_deep.genes }};
+ var selectedGene = $("#gene").autocomplete({
+ source: genes.genes,
+ maxResults: 10,
+ maxShowItems: 10,
+ minLength: 1,
+ });
+ });
+ $("#analysis").click(function (event) {
+ event.preventDefault();
+ var genes = {{ index .Site.Data.sc_data.hu_donor_pr_deep.genes }};
+ _gene = $("#gene").val().toUpperCase();
+ if ($.inArray(_gene, genes.genes) < 0) {
+ alert("Gene " + _gene + " not exist in the data.")
+ return
+ }
+ document.getElementById("label.gene").innerHTML = _gene
+ document.getElementById("label.populations").innerHTML = "Separated by " + $("#populations").val().toUpperCase()
+ document.getElementById("label.ClusterVis").innerHTML = "Cluster Visualization"
+ var img = document.getElementById("img.ClusterVis");
+ img.src = "https://s3.us-east-2.amazonaws.com/data.images.gse117403.deep/images/" + $("#populations").val() + "/umap.png"
+ document.getElementById("label.Feature").innerHTML = "Feature Plot"
+ var img = document.getElementById("img.Feature");
+ img.src = "https://s3.us-east-2.amazonaws.com/data.images.gse117403.deep/images/umap/" + "genes/" + _gene + "_1.png"
+ document.getElementById("label.ViolinBox").innerHTML = "Violin Box Plot"
+ var img = document.getElementById("img.ViolinBox");
+ img.src = "https://s3.us-east-2.amazonaws.com/data.images.gse117403.deep/images/ViolinBox/" + $("#populations").val() + "/genes/" + _gene + "_1.png"
+ return (_gene)
+ });
+ </script>
</head>
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