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stat-column.html
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<!DOCTYPE html>
<html>
<head>
<title>stat-column</title>
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<div id="content" class="autogenerated">
<!-- START CONTENT -->
<h1>stat-column</h1>
<h2>Usage:</h2>
<p><code>crux stat-column [options] <tsv file> <column name></code></p>
<h2>Description:</h2>
<p>Given a tab-delimited file, collect summary statistics on the values within a specified column. The specified column must contain numeric values.</p>
<h2>Input:</h2>
<ul>
<li><code>tsv file</code> – A tab-delimited file, with column headers in the first row. Use "-" to read from standard input.</li>
<li><code>column name</code> – A column name.</li>
</ul>
<h2>Output:</h2>
<ul>
<li><code>stdout</code> – The program prints to standard output the following statistics for the specified column: number of rows, minimum, maximum, sum, average, and median of the data values.</li>
</ul>
<h2>Options:</h2>
<ul style="list-style-type: none;">
<li class="nobullet">
<h3>Input and output</h3>
<ul>
<li class="nobullet"><code>--delimiter <string></code> – Specify the input and output delimiter to use when processing the delimited file. The argument can be either a single character or the keyword 'tab.' Default = <code>tab</code>.</li>
<li class="nobullet"><code>--header T|F</code> – Print the header line of the file, in addition to the columns that match. Default = <code>true</code>.</li>
<li class="nobullet"><code>--precision <integer></code> – Set the precision for scores written to sqt and text files. Default = <code>8</code>.</li>
<li class="nobullet"><code>--verbosity <integer></code> – Specify the verbosity of the current processes. Each level prints the following messages, including all those at lower verbosity levels: 0-fatal errors, 10-non-fatal errors, 20-warnings, 30-information on the progress of execution, 40-more progress information, 50-debug info, 60-detailed debug info. Default = <code>30</code>.</li>
</ul>
</li>
</ul>
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The original version of Crux was written by Chris Park and Aaron Klammer
under the supervision
of <a href="http://www.gs.washington.edu/faculty/maccoss.htm">Prof. Michael
MacCoss</a>
and <a href="http://noble.gs.washington.edu/~noble">Prof. William
Stafford Noble</a> in the Department of Genome Sciences at the
University of Washington, Seattle. Website by <a href="http://www.yuvalboss.com/">Yuval Boss</a>
<br />The complete list of contributors
can be found <a href="../contributors.html">here</a>.
<br />
<br />
Maintenance and development of Crux is funded by the <a href="https://www.nih.gov/">National Institutes of Health</a> awards R01 GM096306 and P41 GM103533.
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