diff fastx_toolkit-0.0.6/galaxy/tools/fastx_toolkit/fasta_clipping_histogram.xml @ 3:997f5136985f draft default tip

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author xilinxu
date Thu, 14 Aug 2014 04:52:17 -0400
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+++ b/fastx_toolkit-0.0.6/galaxy/tools/fastx_toolkit/fasta_clipping_histogram.xml	Thu Aug 14 04:52:17 2014 -0400
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+<tool id="cshl_fasta_clipping_histogram" name="Length Distribution">
+	<description>chart</description>
+	<command>fasta_clipping_histogram.pl $input $outfile</command>
+	
+	<inputs>
+		<param format="fasta" name="input" type="data" label="Library to analyze" />
+	</inputs>
+
+	<outputs>
+		<data format="png" name="outfile" metadata_source="input" />
+	</outputs>
+<help>
+
+**What it does**
+
+This tool creates a histogram image of sequence lengths distribution in a given fasta data set file.
+
+**TIP:** Use this tool after clipping your library (with **FASTX Clipper tool**), to visualize the clipping results.
+
+-----
+
+**Output Examples**
+
+
+In the following library, most sequences are 24-mers to 27-mers. 
+This could indicate an abundance of endo-siRNAs (depending of course of what you've tried to sequence in the first place).
+
+.. image:: ./static/fastx_icons/fasta_clipping_histogram_1.png
+
+
+In the following library, most sequences are 19,22 or 23-mers. 
+This could indicate an abundance of miRNAs (depending of course of what you've tried to sequence in the first place).
+
+.. image:: ./static/fastx_icons/fasta_clipping_histogram_2.png
+
+</help>
+</tool>
+<!-- FASTA-Clipping-Histogram is part of the FASTX-toolkit, by A.Gordon (gordon@cshl.edu) -->