Mercurial > repos > ppericard > viscorvar
comparison viscorvar_circlecor.xml @ 4:d4e9f7546dfa draft
"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 |
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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 |