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comparison microsatellite_birthdeath.xml @ 2:da3e903b8c3e draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/microsatellite_birthdeath commit a1517c9d22029095120643bbe2c8fa53754dd2b7
author devteam
date Wed, 11 Nov 2015 12:21:05 -0500
parents d1f31a7d7c65
children
comparison
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1:d1f31a7d7c65 2:da3e903b8c3e
22 <options> 22 <options>
23 <filter type="data_meta" ref="alignment" key="species" /> 23 <filter type="data_meta" ref="alignment" key="species" />
24 </options> 24 </options>
25 </param> 25 </param>
26 26
27 <param name="tree_definition" size="200" type="text" value= "((((hg18,panTro2),ponAbe2),rheMac2),calJac1)" label="Tree definition of all species above whether or not selected for microsatellite extraction" 27 <param name="tree_definition" type="text" value= "((((hg18,panTro2),ponAbe2),rheMac2),calJac1)" label="Tree definition of all species above whether or not selected for microsatellite extraction"
28 help="For example: ((((hg18,panTro2),ponAbe2),rheMac2),calJac1)"/> 28 help="For example: ((((hg18,panTro2),ponAbe2),rheMac2),calJac1)"/>
29 29
30 <param name="separation" size="10" type="integer" value="40" label="Total length of flanking DNA used for sequence-similarity comparisons among species" 30 <param name="separation" type="integer" value="40" label="Total length of flanking DNA used for sequence-similarity comparisons among species"
31 help="A value of 40 means: 20 bp upstream and 20 bp downstream DNA will be used for similarity comparisons."/> 31 help="A value of 40 means: 20 bp upstream and 20 bp downstream DNA will be used for similarity comparisons."/>
32 32
33 <param name="thresholds" size="15" type="text" value="9,10,12,12" label="Minimum Threshold for the number of repeats for microsatellites" 33 <param name="thresholds" type="text" value="9,10,12,12" label="Minimum Threshold for the number of repeats for microsatellites"
34 help="A value of 9,10,12,12 means: All monos having fewer than 9 repeats, dis having fewer than 5 repeats, tris having fewer than 4 repeats, tetras having fewer than 3 repeats will be excluded from the output."/> 34 help="A value of 9,10,12,12 means: All monos having fewer than 9 repeats, dis having fewer than 5 repeats, tris having fewer than 4 repeats, tetras having fewer than 3 repeats will be excluded from the output."/>
35 35
36 <param name="simthresh" size="10" type="integer" value="80" label="Percent sequence similarity of flanking regions (of length same as the above separation distance" 36 <param name="simthresh" type="integer" value="80" label="Percent sequence similarity of flanking regions (of length same as the above separation distance"
37 help="Enter a value from 0 to 100"/> 37 help="Enter a value from 0 to 100"/>
38 38
39 39
40 </page> 40 </page>
41 </inputs> 41 </inputs>