Mercurial > repos > ppericard > viscorvar

comparison viscorvar_circlecor.xml @ 4:d4e9f7546dfa draft

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"planemo upload for repository https://gitlab.com/bilille/galaxy-viscorvar commit 579dc54316e8ede493f86f434a87d3d7b692b023"
author ppericard
date Tue, 17 Nov 2020 13:01:44 +0000
parents df8428358b7f
children 88c1fd2ac110
comparison
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3:df8428358b7f 4:d4e9f7546dfa
1 <tool id="viscorvar_circlecor" name="visCorVar circleCor" version="@TOOL_VERSION@+galaxy1" profile="16.04" workflow_compatible="true"> 1 <tool id="viscorvar_circlecor" name="visCorVar circleCor" version="@TOOL_VERSION@+galaxy0" profile="16.04" workflow_compatible="true">
2 2
3 <description>plots a correlation circle for the datasets whose correlation circles can be superimposed. This correlation circle contains the selected variables of these datasets which are included in a rectangle and the response variables.</description> 3 <description>plots a correlation circle for the datasets whose correlation circles can be superimposed. This correlation circle contains the selected variables of these datasets which are included in a rectangle and the response variables.</description>
4 4
5 <macros> 5 <macros>
6 <import>macros.xml</import> 6 <import>macros.xml</import>
27 --output_pdf ${output_pdf} 27 --output_pdf ${output_pdf}
28 28
29 @COMMAND_LOG_EXIT@ 29 @COMMAND_LOG_EXIT@
30 30
31 ]]></command> 31 ]]></command>
32
33 <inputs> 32 <inputs>
34 <param name="input_rdata" type="data" format="rdata" 33 <param name="input_rdata" type="data" format="rdata"
35 label="Input RData file" 34 label="Input RData file"
36 help="output RData from matCorAddVar"/> 35 help="this is the RData output file from the matCorAddVar function"/>
37 <param name="blocks_vec_list" type="data" format="tabular" 36 <param name="blocks_vec_list" type="data" format="tabular"
38 label="List of blocks vector." 37 label="List of blocks vector."
39 help="output *_blocks_comb.tsv file from matCorAddVar"/> 38 help="output *_blocks_comb.tsv file from matCorAddVar."/>
40 <param name="select_blocks" type="select" 39 <param name="select_blocks" type="select"
41 label="Blocks" 40 label="Blocks"
42 help="list of the blocks that are to be superimposed"> 41 help="each element of List of blocks vector contain blocks for which selected variables can
42 be visualized in the correlation circle">
43 <options from_dataset="blocks_vec_list"> 43 <options from_dataset="blocks_vec_list">
44 <column name="value" index="0"/> 44 <column name="value" index="0"/>
45 <filter type="unique_value" column="0"/> 45 <filter type="unique_value" column="0"/>
46 <filter type="sort_by" name="sorted_value" column="0"/> 46 <filter type="sort_by" name="sorted_value" column="0"/>
47 </options> 47 </options>
48 </param> 48 </param>
49 <param name="responses_var_list" type="data" format="tabular" 49 <param name="responses_var_list" type="data" format="tabular"
50 label="List of response variables" 50 label="List of response variables."
51 help="output *_response_var.tsv file from matCorAddVar"/> 51 help="output *_response_var.tsv file from matCorAddVar"/>
52 <param name="select_responses_var" type="select" display="checkboxes" 52 <param name="select_responses_var" type="select" display="checkboxes"
53 multiple="true" label="Response variables" 53 multiple="true" label="Response variables"
54 help="select the response variables which will be plotted in the correlation circle"> 54 help="choose the response variables which will be plotted in the correlation circle">
55 <!-- <param name="select_responses_var" type="select" multiple="true" label="Response variables"> --> 55 <!-- <param name="select_responses_var" type="select" multiple="true" label="Response variables"> -->
56 <options from_dataset="responses_var_list"> 56 <options from_dataset="responses_var_list">
57 <column name="value" index="0"/> 57 <column name="value" index="0"/>
58 <filter type="unique_value" column="0"/> 58 <filter type="unique_value" column="0"/>
59 <filter type="sort_by" name="sorted_value" column="0"/> 59 <filter type="sort_by" name="sorted_value" column="0"/>
87 87
88 ----------- 88 -----------
89 Description 89 Description
90 ----------- 90 -----------
91 91
92 Bla bla... 92 This tool allows visualizing variables of omics datasets which are correlated with
93 the response variables thanks to correlation circles. The determination of the omics
94 datasets which can be visualized is made by the tool matCorAddVar. This tool performs
95 a zoom in a rectangle to retrieve omics datasets variables which are correlated with a
96 response variable.
93 97
94 ----------------- 98 -----------------
95 Workflow position 99 Workflow position
96 ----------------- 100 -----------------
97 101