Mercurial > repos > yusuf > filter_table_by_names
comparison FilterTableByNamesList.xml @ 0:f92e6aff30b7 default tip
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author | Yusuf Ali <ali@yusuf.email> |
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date | Wed, 25 Mar 2015 13:35:07 -0600 |
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-1:000000000000 | 0:f92e6aff30b7 |
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1 <?xml version="1.0"?> | |
2 | |
3 <tool id="filter_by_list_1" name="Filter a tabular file"> | |
4 <description>against a list of desired column values</description> | |
5 <version_string>echo 1.0.0</version_string> | |
6 <command interpreter="perl">filter_by_list $case_sensitive $input_table $file_of_names $filtered_output_table $num_header_lines</command> | |
7 <inputs> | |
8 <param format="tabular" name="input_table" type="data" label="Text table to filter"/> | |
9 <param format="text" name="file_of_names" type="data" label="Text file with target names" help="Input lines with any of these names in any column will be retained"/> | |
10 <param name="case_sensitive" type="boolean" value="True" label="Case sensitive?"/> | |
11 <param name="num_header_lines" type="integer" value="1" min="-1" max="100" label="Number of header lines" help="These will be copied to the output verbatim, without checking for names match. Specifying -1 will copy all lines starting with a pound sign (#)"/> | |
12 </inputs> | |
13 <outputs> | |
14 <data name="filtered_output_table" format="tabular" type="data" label="Subset of table matching specific names"/> | |
15 </outputs> | |
16 | |
17 <tests/> | |
18 | |
19 <help> | |
20 This tool retains lines of an input tabular file that have a column value matching any of the values in the "names" file. This is useful for example to | |
21 report only a subset of an HGVS or BED file corresponding to a set of genes of interest. The names file should have one name per line. If you are looking to | |
22 only match one name, it might be just as easy to use the generic Galaxy tool "Select lines that match an expression". | |
23 </help> | |
24 | |
25 </tool> |