Mercurial > repos > proteore > proteore_expression_levels_by_tissue

comparison get_expression_profiles.xml @ 13:2173192d4824 draft default tip

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"planemo upload commit 59b014e9f6e2d668cbd7c4844b10db3d59baefd8"
author proteore
date Thu, 07 May 2020 10:01:54 -0400
parents 56c93d1fc8fd
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12:56c93d1fc8fd 13:2173192d4824
1 <tool id="sel_ann_hpa" name="Get expression profiles" version="2019.06.27"> 1 <tool id="sel_ann_hpa" name="Get expression profiles" version="2020.05.07">
2 <description>by (normal or tumor) tissue/cell type [Human Protein Atlas] 2 <description>by (normal or tumor) tissue/cell type [Human Protein Atlas]
3 </description> 3 </description>
4 <requirement type="package" version="3.6.1">r-base</requirement>
4 <requirements> 5 <requirements>
5 </requirements> 6 </requirements>
6 <stdio> 7 <stdio>
7 <exit_code range="1:" /> 8 <exit_code range="1:" />
8 </stdio> 9 </stdio>
66 <param name="database" type="select" label="Human Protein Atlas (normal or tumor tissue)"> 67 <param name="database" type="select" label="Human Protein Atlas (normal or tumor tissue)">
67 <option value="normal">Human Normal Tissue</option> 68 <option value="normal">Human Normal Tissue</option>
68 <option value="tumor">Human Tumor Tissue</option> 69 <option value="tumor">Human Tumor Tissue</option>
69 </param> 70 </param>
70 <when value="normal"> 71 <when value="normal">
71 <param name="proteinatlas" type="select" label="Normal tissue HPA version 18.1" > 72 <param name="proteinatlas" type="select" label="Normal tissue HPA version" >
72 <options from_data_table="proteore_protein_atlas_normal_tissue"> 73 <options from_data_table="proteore_protein_atlas_normal_tissue">
73 <filter type="sort_by" column="0"/> 74 <filter type="sort_by" column="0"/>
74 </options> 75 </options>
75 </param> 76 </param>
76 <param name="normal_tissue" type="select" label="Select tissue(s)" multiple="True" display="checkboxes" optional="False"> 77 <param name="normal_tissue" type="select" label="Select tissue(s)" multiple="True" display="checkboxes" optional="False">
135 <option value="Approved">Approved</option> 136 <option value="Approved">Approved</option>
136 <option value="Uncertain">Uncertain</option> 137 <option value="Uncertain">Uncertain</option>
137 </param> 138 </param>
138 </when> 139 </when>
139 <when value="tumor"> 140 <when value="tumor">
140 <param name="proteinatlas" type="select" label="Tumor tissue HPA version 18.1" > 141 <param name="proteinatlas" type="select" label="Tumor tissue HPA version" >
141 <options from_data_table="proteore_protein_atlas_tumor_tissue"> 142 <options from_data_table="proteore_protein_atlas_tumor_tissue">
142 <filter type="sort_by" column="0"/> 143 <filter type="sort_by" column="0"/>
143 </options> 144 </options>
144 </param> 145 </param>
145 <param name="cancer_tissue" type="select" label="Select cancer tissue(s)" multiple="True" display="checkboxes" optional="False"> 146 <param name="cancer_tissue" type="select" label="Select cancer tissue(s)" multiple="True" display="checkboxes" optional="False">
240 241
241 ----- 242 -----
242 243
243 **Data sources (release date)** 244 **Data sources (release date)**
244 245
245 Both normal and tumor tissues data are based on the Human Protein Atlas version 18.1 and Ensembl version 88.38. More information: https://www.proteinatlas.org/about/download 246 23/10/2018: Both normal and tumor tissues data are based on the Human Protein Atlas version 18.1 and Ensembl version 88.38.
247 12/12/2019: Both normal and tumor tissues data are based on The Human Protein Atlas version 19 and Ensembl version 92.38.
248 More information: https://www.proteinatlas.org/about/download
246 249
247 ----- 250 -----
248 251
249 .. class:: infomark 252 .. class:: infomark
250 253