Mercurial > repos > bgruening > hicexplorer_chicviewpointbackgroundmodel
comparison chicViewpointBackgroundModel.xml @ 8:9d02f1819e81 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
author | iuc |
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date | Wed, 18 Oct 2023 11:03:34 +0000 |
parents | 628259b7ffb4 |
children |
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7:b285586b61a6 | 8:9d02f1819e81 |
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21 --threads @THREADS@ | 21 --threads @THREADS@ |
22 --outFileName background.txt | 22 --outFileName background.txt |
23 ]]> </command> | 23 ]]> </command> |
24 <inputs> | 24 <inputs> |
25 <expand macro="matrix_h5_cooler_multiple_macro" /> | 25 <expand macro="matrix_h5_cooler_multiple_macro" /> |
26 <param argument="--referencePoints" type="data" format='interval' label="Reference points" help="Bed file contains all reference points which should be used to build the background model." /> | 26 <param argument="--referencePoints" type="data" format="interval" label="Reference points" help="Bed file contains all reference points which should be used to build the background model." /> |
27 <param argument="--averageContactBin" type="integer" value="5" label="Average contacts window size" help='Average the contacts of n bins via a sliding window approach.' /> | 27 <param argument="--averageContactBin" type="integer" value="5" label="Average contacts window size" help="Average the contacts of n bins via a sliding window approach." /> |
28 <param argument="--fixateRange" type="integer" value="500000" label="Clip background distance" help='Fixate score of background model starting at distance x. E.g. all values greater 500kb are set to the value of the 500kb bin.' /> | 28 <param argument="--fixateRange" type="integer" value="500000" label="Clip background distance" help="Fixate score of background model starting at distance x. E.g. all values greater 500kb are set to the value of the 500kb bin." /> |
29 <param argument='--truncateZeros' type='boolean' truevalue='--truncateZeros' falsevalue="" checked="false" label="Truncate zeros" help="Set this parameter if you want truncate zeros to fight over dispersion." /> | 29 <param argument="--truncateZeros" type="boolean" truevalue="--truncateZeros" falsevalue="" checked="false" label="Truncate zeros" help="Set this parameter if you want truncate zeros to fight over dispersion." /> |
30 </inputs> | 30 </inputs> |
31 <outputs> | 31 <outputs> |
32 <data name="background" from_work_dir="background.txt" format="tabular" label="${tool.name} on [${on_string}]: Background model" /> | 32 <data name="background" from_work_dir="background.txt" format="tabular" label="${tool.name} on [${on_string}]: Background model" /> |
33 </outputs> | 33 </outputs> |
34 <tests> | 34 <tests> |