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about.html
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<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="UTF-8">
<title>StarmapVis | About</title>
<link href="https://cdn.jsdelivr.net/npm/bootstrap@5.0.0-beta2/dist/css/bootstrap.min.css" rel="stylesheet" integrity="sha384-BmbxuPwQa2lc/FVzBcNJ7UAyJxM6wuqIj61tLrc4wSX0szH/Ev+nYRRuWlolflfl" crossorigin="anonymous">
<script src="https://cdn.jsdelivr.net/npm/bootstrap@5.0.0-beta2/dist/js/bootstrap.bundle.min.js" integrity="sha384-b5kHyXgcpbZJO/tY9Ul7kGkf1S0CWuKcCD38l8YkeH8z8QjE0GmW1gYU5S9FOnJ0" crossorigin="anonymous"></script>
</head>
<body style="background-color:#F4F6F6">
<!--top nav-->
<div class="row align-items-start shadow" style="background-color: #154360; color: #F4F6F6">
<div class="col">
<h2 class="p-2 ms-2 fw-light"><a href="index.html" style="text-decoration:none; color: #F4F6F6">StarmapVis</a></h2>
</div>
<div class="col p-1">
<ul class="nav justify-content-end p-2">
<li class="nav-item">
<a class="nav-link fw-light" href="about.html" style="color: white">ABOUT</a>
</li>
<li class="nav-item">
<a class="nav-link fw-light" href="data.html" style="color: white">DATA</a>
</li>
<li class="nav-item">
<a class="nav-link fw-light" href="https://github.com/holab-hku/starmapVR" style="color: white">SOURCE CODE</a>
</li>
</ul>
</div>
</div>
<!--main-->
<div class="container p-2" style="height: auto">
<div class="container" style="height: 15px"></div>
<div class="card card-body shadow">
<h4 class="card-title fw-light">About the application</h4>
<p class="card-text">StarmapVis allows a viewer to assess the high-level
clustering structure of cells and examine the interaction and connection
between different coordinates, such as 3D projections and spatial coordinates.
Users can follow the provided python and R scripts to obtain the proper input
for StarmapVis. The output then can be accessed in browsers from a desktop,
laptop or a mobile device. We provide multiple scripts for StarmapVis to easily
integrate with other single cell analysis tool. The scripts covers widely-used
python and R single cell analysis packages, including Scanpy and Seurat for
general analysis, PAGA and Monocle3 fro trajectory inference, Scaranoma for
integration analysis. You can find the scripts in <a href="https://github.com/holab-hku/starmapVis">https://github.com/holab-hku/starmapVis</a>.
</p>
</div>
<div class="container" style="height: 15px"></div>
<div class="card card-body shadow">
<h4 class="card-title fw-light">Instructions</h4>
<p class="card-text">1.Cell information csv file needs to contain a header row
with the following column names – x, y, z and labels – corresponding to the 3D
coordinates of points and the cell label (e.g. clusters, gene markers,
pseudotime, etc.).
</p>
<p class="card-text">2.Trajectory information csv file contains the following
column names – name, x, y, z, children and root – corresponding to the names
and 3D coordinates of edges and the connectivity amongst these edges. The
animation path information can be provided by inputting the list of names of
edges separated by space in the corresponding section.
</p>
<p class="card-text">3.History images can be uploaded by providing images in PNG
format and specifying the coordinates of images in the image upload section.
</p>
<p class="card-text">4.Csv file with another set of coordinates of analysis can
be provided in the last section if the user wants to animate the transformation
from 2D to 3D.
</p>
<p class="card-text">Users can choose uploading a single cell csv file or a
combination of several files and information to generate multiple kinds of
visualization from a single-cell RNA-seq data to a narrative of spatial
transcriptomic data.
</p>
</div>
<div class="container" style="height: 15px"></div>
<div class="card card-body shadow">
<h4 class="card-title fw-light">Contacts</h4>
<p class="card-text">
<strong>Dr Joshua W.K. Ho</strong>: jwkho@hku.hk <br/>
<strong>Xiunan Fang</strong>: xiunanfang@connect.hku.hk <br/>
<strong>Shichao Ma</strong>: u3572177@connect.hku.hk <br/>
<strong>School of Biomedical Sciences, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong SAR, China</strong>
</p>
</div>
<div class="container" style="height: 15px"></div>
<div class="container" style="height: 15px"></div>
</div>
<!--foot-->
<div class="row shadow justify-content-center fixed-bottom fw-lighter fs-6 text-muted" style="background-color: white">
Copyright © 2021 Ho Lab at HKU. All Rights Reserved
</div>
</body>
</html>