Mercurial > repos > q2d2 > qiime2__composition__ancombc2

comparison qiime2__composition__ancombc2.xml @ 2:be06c0928b48 draft default tip

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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__composition commit 64ed09f1f1c680ad8373d261bd6be43a4f8a8d5b
author q2d2
date Sat, 01 Nov 2025 17:09:40 +0000
parents d6add7288bb0
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1:d6add7288bb0 2:be06c0928b48
4 4
5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause) 5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause)
6 --> 6 -->
7 <!-- 7 <!--
8 This tool was automatically generated by: 8 This tool was automatically generated by:
9 q2galaxy (version: 2025.7.0) 9 q2galaxy (version: 2025.10.0)
10 for: 10 for:
11 qiime2 (version: 2025.7.0) 11 qiime2 (version: 2025.10.0)
12 --> 12 -->
13 <tool name="qiime2 composition ancombc2" id="qiime2__composition__ancombc2" version="2025.7.0+q2galaxy.2025.7.0" profile="22.05" license="BSD-3-Clause"> 13 <tool name="qiime2 composition ancombc2" id="qiime2__composition__ancombc2" version="2025.10.0+q2galaxy.2025.10.0" profile="22.05" license="BSD-3-Clause">
14 <description>ANCOM-BC2: Analysis of Composition of Microbiomes with Bias Correction 2.</description> 14 <description>ANCOM-BC2: Analysis of Composition of Microbiomes with Bias Correction 2.</description>
15 <xrefs> 15 <xrefs>
16 <xref type="bio.tools">qiime2</xref> 16 <xref type="bio.tools">qiime2</xref>
17 </xrefs> 17 </xrefs>
18 <requirements> 18 <requirements>
19 <container type="docker">quay.io/qiime2/amplicon:2025.7</container> 19 <container type="docker">quay.io/qiime2/amplicon:2025.10</container>
20 </requirements> 20 </requirements>
21 <version_command>q2galaxy version composition</version_command> 21 <version_command>q2galaxy version composition</version_command>
22 <command detect_errors="exit_code">q2galaxy run composition ancombc2 '$inputs'</command> 22 <command detect_errors="exit_code">q2galaxy run composition ancombc2 '$inputs'</command>
23 <configfiles> 23 <configfiles>
24 <inputs name="inputs" data_style="staging_path_and_source_path"/> 24 <inputs name="inputs" data_style="staging_path_and_source_path"/>
161 161
162 Description: 162 Description:
163 ------------ 163 ------------
164 Calls the `ancombc2` function of the ANCOMBC software package. See the ANCOM-BC2 publication and source code for details. 164 Calls the `ancombc2` function of the ANCOMBC software package. See the ANCOM-BC2 publication and source code for details.
165 165
166 Sensitivity Analysis for Pseudo-Count Addition: To assess robustness, a series of pseudo-counts (0.01 to 0.5, in 0.01 increments) is added to zero counts, and a linear model is fitted to the bias-corrected log-abundance data for each. A sensitivity score is calculated as the proportion of p-values above the specified alpha. Taxa with consistent significance across all pseudo-counts, and agreement with complete-data results, are flagged as robust (diff_robust = TRUE). Note: Results depend on the selected alpha value.
167
166 Examples: 168 Examples:
167 --------- 169 ---------
168 170
169 single-variable 171 single-variable
170 *************** 172 ***************