# HG changeset patch
# User devteam
# Date 1380134505 14400
# Node ID 9f71775d0fe2911cb0d026b0b9c4397e25150446
Uploaded
diff -r 000000000000 -r 9f71775d0fe2 fastq_quality_boxplot.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/fastq_quality_boxplot.xml Wed Sep 25 14:41:45 2013 -0400
@@ -0,0 +1,57 @@
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+ fastx_toolkit
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+ fastq_quality_boxplot_graph.sh -t '$input.name' -i $input -o $output
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+**What it does**
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+Creates a boxplot graph for the quality scores in the library.
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+.. class:: infomark
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+**TIP:** Use the **FASTQ Statistics** tool to generate the report file needed for this tool.
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+-----
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+**Output Examples**
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+* Black horizontal lines are medians
+* Rectangular red boxes show the Inter-quartile Range (IQR) (top value is Q3, bottom value is Q1)
+* Whiskers show outlier at max. 1.5*IQR
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+An excellent quality library (median quality is 40 for almost all 36 cycles):
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+.. image:: ${static_path}/fastx_icons/fastq_quality_boxplot_1.png
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+A relatively good quality library (median quality degrades towards later cycles):
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+.. image:: ${static_path}/fastx_icons/fastq_quality_boxplot_2.png
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+A low quality library (median drops quickly):
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+.. image:: ${static_path}/fastx_icons/fastq_quality_boxplot_3.png
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+------
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+This tool is based on `FASTX-toolkit`__ by Assaf Gordon.
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+ .. __: http://hannonlab.cshl.edu/fastx_toolkit/
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diff -r 000000000000 -r 9f71775d0fe2 tool_dependencies.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml Wed Sep 25 14:41:45 2013 -0400
@@ -0,0 +1,6 @@
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