--- a/dada2_removeBimeraDenovo.xml	Sat Dec 07 08:47:32 2024 +0000
+++ b/dada2_removeBimeraDenovo.xml	Tue Feb 11 23:28:29 2025 +0000
@@ -1,4 +1,4 @@
-<tool id="dada2_removeBimeraDenovo" name="dada2: removeBimeraDenovo" version="@DADA2_VERSION@+galaxy@WRAPPER_VERSION@" profile="19.09">
+<tool id="dada2_removeBimeraDenovo" name="dada2: removeBimeraDenovo" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
     <description>Remove bimeras from collections of unique sequences</description>
     <macros>
         <import>macros.xml</import>
@@ -82,6 +82,8 @@
 - from **pooled** sequences: Each sequence is evaluated against a set of "parents" drawn from the sequence collection that are sufficiently more abundant than the sequence being evaluated. Sequences that are bimera are removed, i.e. a two-parent chimera, in which the left side is made up of one parent sequence, and the right-side made up of a second parent sequence.
 - by **consensus**: In short, bimeric sequences are flagged on a sample-by-sample basis. Then, a vote is performed for each sequence across all samples in which it appeared. If the sequence is flagged in a sufficiently high fraction of samples, it is identified as a bimera. A logical vector is returned, with an entry for each sequence in the table indicating whether it was identified as bimeric by this consensus procedure.
 
+**Note**: pooled should only be used in combination with pooled denoising.
+
 Usage
 .....