comparison DimontWeb.xml @ 6:6bc47a4dca07 draft

Uploaded

5:456153e573d6

</configfiles>
<outputs>
<data format="html" name="summary" label="#if str($Dimont_jobname) == '' then $tool.name + ' on ' + $on_string else $Dimont_jobname#">
</data>
</outputs>
<help>
**Dimont** is a universal tool for de-novo motif discovery. Dimont has successfully been applied to ChIP-seq, ChIP-exo and protein-binding microarray (PBM) data.

Input sequences must be supplied in an annotated FastA format as a file uploaded by the "Upload File" task in section "Get Data" of Galaxy.
In the annotation of each sequence, you need to provide a value that reflects the confidence that this sequence is bound by the factor of interest.

6:6bc47a4dca07

</configfiles>
<outputs>
<data format="html" name="summary" label="#if str($Dimont_jobname) == '' then $tool.name + ' on ' + $on_string else $Dimont_jobname#">
</data>
</outputs>
<tests>
	<test>
		<param name="Dimont_jobname" value="Test" />
		<param name="Dimont_ps_Input_sequences" value="dimont_test.fasta" />
		<param name="Dimont_ps_Position_tag" value="peakSummit" />
		<param name="Dimont_ps_Value_tag" value="maxT" />
		<param name="Dimont_ps_Standard_deviation" value="75.0" />
		<param name="Dimont_ps_Weighting_factor" value="0.2" />
		<param name="Dimont_ps_Starts" value="20" />
		<param name="Dimont_ps_Initial_motif_width" value="15" />
		<param name="Dimont_ps_Markov_order_of_motif_model" value="0" />
		<param name="Dimont_ps_Markov_order_of_background_model" value="-1" />
		<param name="Dimont_ps_Equivalent_sample_size" value="4.0" />
		<param name="Dimont_ps_Delete_BSs_from_profile" value="True" />
		<output name="summary" file="Test/Test_html.html" />
	</test>
</tests>
<help>
**Dimont** is a universal tool for de-novo motif discovery. Dimont has successfully been applied to ChIP-seq, ChIP-exo and protein-binding microarray (PBM) data.

Input sequences must be supplied in an annotated FastA format as a file uploaded by the "Upload File" task in section "Get Data" of Galaxy.
In the annotation of each sequence, you need to provide a value that reflects the confidence that this sequence is bound by the factor of interest.