|
0
|
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>
|
