Mercurial > repos > iuc > plink
comparison plink.xml @ 3:57ac42ec1be3 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/plink commit fa78db02447a8f83bd61825eff2d58f449c0280b"
author | iuc |
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date | Fri, 25 Sep 2020 17:48:45 +0000 |
parents | 0d43871f45ac |
children | ac16d24f0d9d |
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2:0d43871f45ac | 3:57ac42ec1be3 |
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612 <option value='Yes'/> | 612 <option value='Yes'/> |
613 </param> | 613 </param> |
614 <when value='No'/> | 614 <when value='No'/> |
615 <when value='Yes'> | 615 <when value='Yes'> |
616 <param name='sex_select' type='select' label='Sex select' help='Filter by phenotypes, experiment, and founder state.'> | 616 <param name='sex_select' type='select' label='Sex select' help='Filter by phenotypes, experiment, and founder state.'> |
617 <option value=''>Do not specifically filter out based on sex or founders</option> | |
617 <option value='--filter-cases'>Only include cases</option> | 618 <option value='--filter-cases'>Only include cases</option> |
618 <option value='--filter-controls'>Only include controls</option> | 619 <option value='--filter-controls'>Only include controls</option> |
619 <option value='--filter-males'>Only include males</option> | 620 <option value='--filter-males'>Only include males</option> |
620 <option value='--filter-females'>Only include females</option> | 621 <option value='--filter-females'>Only include females</option> |
621 <option value='--filter-founders'>Exclude all samples with at least one known parental ID</option> | 622 <option value='--filter-founders'>Exclude all samples with at least one known parental ID</option> |
622 <option value='--filter-nonfounders'>Only include samples with at least one known parental ID</option> | 623 <option value='--filter-nonfounders'>Only include samples with at least one known parental ID</option> |
623 </param> | 624 </param> |
624 <param name='no_sex_select' type='select' label='No sex settings' optional='true' help='How to deal with ambiguous sex phenotypes'> | 625 <param name='no_sex_select' type='select' label='No sex settings' optional='true' help='How to deal with ambiguous sex phenotypes'> |
626 <option value=''>Change nothing with regards to ambiguous sex samples</option> | |
625 <option value='--allow-no-sex'>Prevent samples with ambiguous sex frim having their phenotypes set to missing when analysis commands are run</option> | 627 <option value='--allow-no-sex'>Prevent samples with ambiguous sex frim having their phenotypes set to missing when analysis commands are run</option> |
626 <option value='--must-have-sex'>Force phenotypes of ambiguous-sex samples to missing in output</option> | 628 <option value='--must-have-sex'>Force phenotypes of ambiguous-sex samples to missing in output</option> |
627 </param> | 629 </param> |
628 <param name='nonfounders' type='boolean' label='Nonfouders' truevalue='--nonfounders' falsevalue='' checked='false' help='Include nonfounders in --freq[x] or --maf/--max-maf/--hwe calculations'/> | 630 <param name='nonfounders' type='boolean' label='Nonfouders' truevalue='--nonfounders' falsevalue='' checked='false' help='Include nonfounders in --freq[x] or --maf/--max-maf/--hwe calculations'/> |
629 </when> | 631 </when> |