Mercurial > repos > jdv > nanopore_qc

diff test-data/output.html.small.q10 @ 1:8462098b719a draft

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planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/nanopore_qc commit 8acee97e507b49ee9770574c711081ebc3779916
author jdv
date Mon, 04 Dec 2017 13:19:21 -0500
parents
children f2081dc93880
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/output.html.small.q10	Mon Dec 04 13:19:21 2017 -0500
@@ -0,0 +1,191 @@
+<?xml version="1.0" encoding="utf-8"?>
+<!DOCTYPE html>
+<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
+<head>
+    <title></title>
+    <meta http-equiv="content-type" content="application/xhtml+xml; charset=utf-8" />
+    <style>
+        h2 {
+            padding: 0.3em;
+            background-color: #000000;
+            color: #ffffff;
+            margin: 1em 0 2em 0;
+        }
+        h3 {
+            padding: 0em 0.2em 0em 0.2em;
+            color: #555555;
+            border: solid 1px black;
+            border-width: 0px 0px 1px 0px;
+            margin: 2em 0 0.4em 0;
+        }
+        tr {
+            margin: 0;
+        }
+        tr:nth-child(even) {
+            background-color: #bbbbbb;
+        }
+        tr:nth-child(odd) {
+            background-color: #eeeeee;
+        }
+        caption {
+            text-align: left;
+            font-weight: bold;
+            background-color: #550000;
+            color: #ffffff;
+            padding: 0.1em 0.2em;
+        }
+        table {
+            margin: 1em;
+            padding: 0.3em;
+        }
+        td {
+            margin: 0;
+            padding: 0 0.4em;
+        }
+        tr td:nth-child(1) {
+            color: #550000;
+        }
+        figure {
+            display: table;
+            margin: 2em 0;
+        }
+        figcaption {
+            display: table-caption;
+            caption-side: top;
+            font-size: 1.1em;
+            text-decoration: none;
+            text-align: center;
+            font-weight: bold;
+            background-color: #550000;
+            color: #ffffff;
+            padding: 0.1em 0.2em;
+            margin: 2em 0 0.7em 0;
+        }
+            
+    </style>
+</head>
+<body>
+
+    <h2>NanoporeQC Report</h2>
+    <h3>Summary statistics</h3>
+    <table>
+        <caption>All reads</caption>
+        <tr>
+            <td>Total Yield (Gb)</td>
+            <td>0.0092773</td>
+        </tr>
+        <tr>
+            <td>Total Reads</td>
+            <td>9999</td>
+        </tr>
+        <tr>
+            <td>Mean Length</td>
+            <td>927.8</td>
+        </tr>
+        <tr>
+            <td>Median Length</td>
+            <td>941.0</td>
+        </tr>
+        <tr>
+            <td>Max Length</td>
+            <td>25740.0</td>
+        </tr>
+        <tr>
+            <td>Mean Q</td>
+            <td>11.7</td>
+        </tr>
+        <tr>
+            <td>Median Q</td>
+            <td>12.7</td>
+        </tr>
+    </table>
+    <table>
+        <caption>Q>=10</caption>
+        <tr>
+            <td>Total Yield (Gb)</td>
+            <td>0.0079507</td>
+        </tr>
+        <tr>
+            <td>Total Reads</td>
+            <td>7952</td>
+        </tr>
+        <tr>
+            <td>Mean Length</td>
+            <td>999.8</td>
+        </tr>
+        <tr>
+            <td>Median Length</td>
+            <td>949.0</td>
+        </tr>
+        <tr>
+            <td>Max Length</td>
+            <td>6545.0</td>
+        </tr>
+        <tr>
+            <td>Mean Q</td>
+            <td>12.9</td>
+        </tr>
+        <tr>
+            <td>Median Q</td>
+            <td>13.1</td>
+        </tr>
+    </table>
+    <h3>QC plots</h3>
+    <p>(Click on plot for hi-resolution version)</p>
+    <a href="length_histogram.png">
+        <figure>
+            <img src="length_histogram.screen.png" alt="length_histogram" />
+            <figcaption>Read length distribution</figcaption>
+        </figure>
+    </a>
+    <a href="q_histogram.png">
+        <figure>
+            <img src="q_histogram.screen.png" alt="q_histogram" />
+            <figcaption>Mean quality score distribution</figcaption>
+        </figure>
+    </a>
+    <a href="reads_per_hour.png">
+        <figure>
+            <img src="reads_per_hour.screen.png" alt="reads_per_hour" />
+            <figcaption>Yield over time</figcaption>
+        </figure>
+    </a>
+    <a href="cumulative_yield.png">
+        <figure>
+            <img src="cumulative_yield.screen.png" alt="cumulative_yield" />
+            <figcaption>Cumulative yield over time</figcaption>
+        </figure>
+    </a>
+    <a href="yield_summary.png">
+        <figure>
+            <img src="yield_summary.screen.png" alt="yield_summary" />
+            <figcaption>Yield by read length cutoff</figcaption>
+        </figure>
+    </a>
+    <a href="flowcell_overview.png">
+        <figure>
+            <img src="flowcell_overview.screen.png" alt="flowcell_overview" />
+            <figcaption>Median read quality per channel</figcaption>
+        </figure>
+    </a>
+    <a href="length_by_hour.png">
+        <figure>
+            <img src="length_by_hour.screen.png" alt="length_by_hour" />
+            <figcaption>Read length over time</figcaption>
+        </figure>
+    </a>
+    <a href="q_by_hour.png">
+        <figure>
+            <img src="q_by_hour.screen.png" alt="q_by_hour" />
+            <figcaption>Read quality over time</figcaption>
+        </figure>
+    </a>
+    <a href="length_vs_q.png">
+        <figure>
+            <img src="length_vs_q.screen.png" alt="length_vs_q" />
+            <figcaption>Read length vs. quality</figcaption>
+        </figure>
+    </a>
+
+</body>
+</html>