|
0
|
1 <tool id="data_manager_fetch_motifs" name="Install Motif Database" version="1.0.0" tool_type="manage_data">
|
|
|
2 <description>Downloads motif databases in tabix format for use with region_motif_enrichment</description>
|
|
|
3 <command interpreter="python">data_manager_fetch_motifs.py "${out_file}" --motif_db ${motif_db_selector}</command>
|
|
|
4 <inputs>
|
|
|
5 <param name="motif_db_selector" type="select" label="Choose the source for the motif db">
|
|
|
6 <option value="test" selected="True">Test Encode Motifs (hg19)</option>
|
|
|
7 <option value="encode">Encode Motifs (hg19)</option>
|
|
|
8 <option value="jaspar">Jaspar and Jolma Motifs (hg19)</option>
|
|
|
9 <option value="mouse">Mouse Motifs (mm9)</option>
|
|
|
10 </param>
|
|
|
11 </inputs>
|
|
|
12 <outputs>
|
|
|
13 <data name="out_file" format="data_manager_json"/>
|
|
|
14 </outputs>
|
|
|
15 <help>
|
|
|
16 **What it does**
|
|
|
17
|
|
|
18 Fetches a reference motif database (bgz and tbi files) from Harvard
|
|
|
19 CBMI source and populates the "motif_databases" data table.
|
|
|
20
|
|
|
21 **TO DO**
|
|
|
22
|
|
|
23 Ability to add motif database from local file, as the last step in
|
|
|
24 a MEME pipeline.
|
|
|
25 </help>
|
|
|
26 </tool>
|
