Mercurial > repos > goeckslab > bayestme_bleed_correct_with_plotting

diff macros.xml @ 0:3379665340fc draft

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planemo upload for repository https://github.com/goeckslab/tools-st/tree/main/tools/bayesTME commit 26edd05a863adac97cb54a9fb2ae5613ce95df50
author goeckslab
date Wed, 03 Dec 2025 19:47:11 +0000
parents
children 49d1547c78f4
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/macros.xml	Wed Dec 03 19:47:11 2025 +0000
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+<macros>
+    <token name="@TOOL_VERSION@">0.0.1</token>
+    <token name="@VERSION_SUFFIX@">0</token>
+	<token name="@PROFILE@">22.01</token>
+
+    <xml name="bayestme_requirements">
+        <requirements>
+            <container type="docker">jeffquinnmsk/bayestme:0a7cde6acac2ffc34e8ad00b7fab75f869d80de2</container>
+        </requirements>
+    </xml>
+
+    <xml name="citations">
+        <citations>
+            <citation type="doi">10.1016/j.cels.2023.06.003</citation>
+        </citations>
+    </xml>
+	
+	<xml name="filter_genes_options" >
+	    
+	    <param argument="--n-top-by-standard-deviation" type="integer" optional="false" label="Use the top N genes with the highest spatial variance"/>
+		
+	    <!-- Additional filtering options -->
+		<section name="additional_filtering_options" title="Additional Filtering Parameters" expanded="false"> 
+		    <param argument="--spot-threshold" optional="true" type="float" label="Filter genes appearing in greater than the provided threshold of tissue spots"/>
+			<param argument="--filter-ribosomal-genes" type="boolean" checked="false" label="Filter ribosomal genes (based on gene name regex)"/>
+		</section>
+	    
+	</xml>
+	
+</macros>
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