# HG changeset patch
# User iuc
# Date 1708001712 0
# Node ID b581ea4908ae944b0572ecfb385eee4a5d8a0c51
# Parent 6f36c907243373c41668d09478f9566031c06826
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f
diff -r 6f36c9072433 -r b581ea4908ae dimet_differential_multigroup_analysis.xml
--- a/dimet_differential_multigroup_analysis.xml Tue Jan 23 14:58:10 2024 +0000
+++ b/dimet_differential_multigroup_analysis.xml Thu Feb 15 12:55:12 2024 +0000
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**Input data files**
-This tool computes the Kruskall Wallis test over 3 or more groups,
+This tool computes the Kruskal-Wallis test over 3 or more groups,
to evaluate if at least one group is significantly different to the other groups (H0: median of all of the groups is equal). For illustration see the section **Metadata File Information** which contains three conditions: Control, Core_mass and Edge_tissue, across one single time point, thus 3 groups (number-of-groups-in-my-data = number-of-conditions x number-of-timepoints)).
This tool requires (at max.) 5 tab-delimited .csv files as inputs. There are two types of files:
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There exist hints on use that will guide you, next to the parameters.
+For more information about the implemented statistical tests, please visit: https://github.com/cbib/DIMet/wiki/2-Statistical-tests
+
+The output files are explained in https://github.com/cbib/DIMet/wiki/3-Output
+
**Available data for testing**
-You can test our tool with the data from our manuscript https://zenodo.org/record/8378887 (the pertinent
+You can test our tool with the data from our manuscript https://zenodo.org/record/10579862 (the pertinent
files for you are located in the subfolders inside the data folder).
-You can also use the minimal data examples from https://zenodo.org/record/8380706
+You can also use the minimal data examples from https://zenodo.org/record/10579891
]]>
diff -r 6f36c9072433 -r b581ea4908ae macros.xml
--- a/macros.xml Tue Jan 23 14:58:10 2024 +0000
+++ b/macros.xml Thu Feb 15 12:55:12 2024 +0000
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+ 0.2.1
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+ label="Select Metabolite(s) for condition 1 to plot (1 Min.). You have to load a abundance file prior to have access to metabolite list">
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+ label="Select Metabolite(s) for condition 1 to plot (1 Min.). You have to load a abundance file prior to have access to metabolite list">
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+ label="Select Metabolite(s) for condition 1 to plot (1 min). You have to load a abundance file prior to have access to metabolite list">
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+ label="Select Metabolite(s) for condition 1 to plot (1 Min.). You have to load a abundance file prior to have access to metabolite list">
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]]>
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]]>
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+ 1:
+ #if len($timepoints) > 0:
+ #for $tp in $timepoint:
+ #set $ctrl_found=False
+ #set $ctrl=""
+ #set $comparisons_bis = list()
+
+ #for $co in $conditions:
+ #set $sub_comparisons = list()
+ #if str($co) in ["'Control'", "'control'", "'ctrl'"]:
+ #set $ctrl_found=True
+ #set $ctrl=str($co)
+ #else:
+ $sub_comparisons.append(re.sub('"', '', str($co)))
+ $sub_comparisons.append(re.sub('"', '', str($tp)))
+
+ #end if
+ $comparisons_bis.append($sub_comparisons)
+ #end for
+
+ #if $ctrl_found:
+ $sub_comparisons.append(str($ctrl))
+ $sub_comparisons.append(str($tp))
+ $comparisons_bis.append($sub_comparisons)
+ #end if
+
+ $comparisons.append($comparisons_bis)
+ #end for
+ #else
+ #for $co in $conditions:
+ $comparisons.append(re.sub('"', '', str($co)))
+ #end for
+ #end if
+
+ #else
+ #if len($conditions) > 0:
+ #if len($timepoints) > 1:
+ #for $co in $conditions:
+ #set $comparisons_bis = list()
+ #for $tp in $timepoint:
+ #set $sub_comparisons = list()
+ $sub_comparisons.append(re.sub('"', '', str($co)))
+ $sub_comparisons.append(re.sub('"', '', str($tp)))
+ $comparisons_bis.append($sub_comparisons)
+ #end for
+ $comparisons.append($comparisons_bis)
+ #end for
+ #end if
+ #else
+ #for $tp in $timepoint:
+ $comparisons.append(re.sub('"', '', str($tp)))
+ #end for
+ #end if
+ #end if
+ ]]>