Mercurial > repos > iuc > meme_meme
diff test-data/fimo_output_xml_1.xml @ 7:487ce3fa1822 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit ef11594cf3ca79e444ab4e30d83de5951a636faf
author | iuc |
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date | Sun, 10 Jul 2016 09:02:25 -0400 |
parents | |
children | 794b2859c286 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/fimo_output_xml_1.xml Sun Jul 10 09:02:25 2016 -0400 @@ -0,0 +1,70 @@ +<?xml version="1.0" encoding="UTF-8" standalone="no"?> +<!-- Begin document body --> +<fimo version="4.11.1" release="Fri Jan 15 12:51:59 2016 -0800"> + xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" + xsi:schemaLocation= xmlns:fimo="http://noble.gs.washington.edu/schema/fimo" +> +<settings> +<setting name="allow clobber">false</setting> +<setting name="compute q-values">true</setting> +<setting name="parse genomic coord.">false</setting> +<setting name="text only">false</setting> +<setting name="scan both strands">false</setting> +<setting name="output threshold">0.0001</setting> +<setting name="threshold type">p-value</setting> +<setting name="max stored scores">100000</setting> +<setting name="pseudocount">0.1</setting> +<setting name="verbosity">1</setting> +</settings> +<sequence-data num-sequences="1" num-residues="5386" /> +<alphabet name="Protein" like="protein"> +<letter id="A" symbol="A" name="Alanine" colour="0000CC"/> +<letter id="C" symbol="C" name="Cysteine" colour="0000CC"/> +<letter id="D" symbol="D" name="Aspartic acid" colour="FF00FF"/> +<letter id="E" symbol="E" name="Glutamic acid" colour="FF00FF"/> +<letter id="F" symbol="F" name="Phenylalanine" colour="0000CC"/> +<letter id="G" symbol="G" name="Glycine" colour="FFB300"/> +<letter id="H" symbol="H" name="Histidine" colour="FFCCCC"/> +<letter id="I" symbol="I" name="Isoleucine" colour="0000CC"/> +<letter id="K" symbol="K" name="Lysine" colour="CC0000"/> +<letter id="L" symbol="L" name="Leucine" colour="0000CC"/> +<letter id="M" symbol="M" name="Methionine" colour="0000CC"/> +<letter id="N" symbol="N" name="Asparagine" colour="008000"/> +<letter id="P" symbol="P" name="Proline" colour="FFFF00"/> +<letter id="Q" symbol="Q" name="Glutamine" colour="008000"/> +<letter id="R" symbol="R" name="Arginine" colour="CC0000"/> +<letter id="S" symbol="S" name="Serine" colour="008000"/> +<letter id="T" symbol="T" name="Threonine" colour="008000"/> +<letter id="V" symbol="V" name="Valine" colour="0000CC"/> +<letter id="W" symbol="W" name="Tryptophan" colour="0000CC"/> +<letter id="Y" symbol="Y" name="Tyrosine" colour="33E6CC"/> +<letter id="X" symbol="X" aliases="*." equals="ACDEFGHIKLMNPQRSTVWY" name="Any amino acid"/> +<letter id="B" symbol="B" equals="DN" name="Asparagine or Aspartic acid"/> +<letter id="Z" symbol="Z" equals="EQ" name="Glutamine or Glutamic acid"/> +<letter id="J" symbol="J" equals="IL" name="Leucine or Isoleucine"/> +</alphabet> +<motif name="1" width="11" best-possible-match="GGGGTATAAAA"/> +<background source="non-redundant database"> +<value letter="A">0.073</value> +<value letter="C">0.018</value> +<value letter="D">0.052</value> +<value letter="E">0.062</value> +<value letter="F">0.040</value> +<value letter="G">0.069</value> +<value letter="H">0.022</value> +<value letter="I">0.056</value> +<value letter="K">0.058</value> +<value letter="L">0.092</value> +<value letter="M">0.023</value> +<value letter="N">0.046</value> +<value letter="P">0.051</value> +<value letter="Q">0.041</value> +<value letter="R">0.052</value> +<value letter="S">0.074</value> +<value letter="T">0.059</value> +<value letter="V">0.064</value> +<value letter="W">0.013</value> +<value letter="Y">0.033</value> +</background> +<cisml-file>cisml.xml</cisml-file> +</fimo>