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comparison tools/solid_tools/solid_qual_boxplot.xml @ 0:9071e359b9a3

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author xuebing
date Fri, 09 Mar 2012 19:37:19 -0500
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1 <tool id="solid_qual_boxplot" name="Draw quality score boxplot" version="1.0.0">
2 <description>for SOLiD data</description>
3
4 <command interpreter="bash">qualsolid_boxplot_graph.sh -t '$input.name' -i $input -o $output</command>
5
6 <inputs>
7 <param format="txt" name="input" type="data" label="Statistics report file (output of 'Quality Statistics for SOLiD data' tool)" />
8 </inputs>
9
10 <outputs>
11 <data format="png" name="output" metadata_source="input" />
12 </outputs>
13 <help>
14
15 **What it does**
16
17 Creates a boxplot graph for the quality scores in the library.
18
19 .. class:: infomark
20
21 **TIP:** Use the **Quality Statistics for SOLiD data** tool to generate the report file needed for this tool.
22
23 -----
24
25 **Output Example**
26
27 * Black horizontal lines are medians
28 * Rectangular red boxes show the Inter-quartile Range (IQR) (top value is Q3, bottom value is Q1)
29 * Whiskers show outliers at max. 1.5*IQR
30
31
32 .. image:: ./static/images/solid_qual.png
33
34 ------
35
36 This tool is based on `FASTX-toolkit`__ by Assaf Gordon.
37
38 .. __: http://hannonlab.cshl.edu/fastx_toolkit/
39 </help>
40 </tool>