Mercurial > repos > xilinxu > xilinxu
diff fastx_toolkit-0.0.6/galaxy/tools/fastx_toolkit/fasta_clipping_histogram.xml @ 3:997f5136985f draft default tip
Uploaded
author | xilinxu |
---|---|
date | Thu, 14 Aug 2014 04:52:17 -0400 |
parents | |
children |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/fastx_toolkit-0.0.6/galaxy/tools/fastx_toolkit/fasta_clipping_histogram.xml Thu Aug 14 04:52:17 2014 -0400 @@ -0,0 +1,38 @@ +<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) -->