Mercurial > repos > iuc > iwtomics_plotwithscale

comparison macros.xml @ 1:d5c094a879a3 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/iwtomics commit 69ca0c7a7e444f54b56d111e16432f5d8dddb96d
author iuc
date Wed, 21 Feb 2018 14:16:06 -0500
parents 055cf9df3a0b
children
comparison
equal deleted inserted replaced
0:055cf9df3a0b 1:d5c094a879a3
41 </xml> 41 </xml>
42 42
43 <xml name="citations"> 43 <xml name="citations">
44 <citations> 44 <citations>
45 <citation type="doi">10.1080/10485252.2017.1306627</citation> 45 <citation type="doi">10.1080/10485252.2017.1306627</citation>
46 <citation type="bibtex"> 46 <citation type="doi">10.1093/bioinformatics/bty090</citation>
47 @MANUAL{
48 iwtomics,
49 author = {Cremona, M.A. and Pini, A. and Chiaromonte, F. and Vantini, S.},
50 title = {IWTomics: Interval-Wise Testing for Omics Data},
51 note = {R package version 1.0.0},
52 year = {2017}
53 }
54 </citation>
55 </citations> 47 </citations>
56 </xml> 48 </xml>
57 49
58 <xml name="plot-params"> 50 <xml name="plot-params">
59 <!-- average --> 51 <!-- average -->
62 <param name="size" type="boolean" truevalue="TRUE" falsevalue="FALSE" checked="True" label="Plot sample size in each position" /> 54 <param name="size" type="boolean" truevalue="TRUE" falsevalue="FALSE" checked="True" label="Plot sample size in each position" />
63 <!-- conditional plot type --> 55 <!-- conditional plot type -->
64 <conditional name="conditionalplottype"> 56 <conditional name="conditionalplottype">
65 <!-- plot type --> 57 <!-- plot type -->
66 <param name="plottype" type="select" label="Plot type"> 58 <param name="plottype" type="select" label="Plot type">
67 <option value="boxplot">Pointwise quantile curves (boxplot)</option> 59 <option value="boxplot">Pointwise quantile curves (boxplot)</option>
68 <option value="curves">Curves (aligned)</option> 60 <option value="curves">Curves (aligned)</option>
69 </param> 61 </param>
70 <!-- conditional choice: plottype=boxplot -->
71 <when value="boxplot"> 62 <when value="boxplot">
72 <section name="probabilitiessection" title="Probabilities" expanded="True" help="Probabilities corresponding to the quantile curves to be drawn."> 63 <section name="probabilitiessection" title="Probabilities" expanded="True" help="Probabilities corresponding to the quantile curves to be drawn.">
73 <param name="prob0" size="3" type="float" value="0.25" min="0.0" max="1.0" label="Probability" /> 64 <param name="prob0" size="3" type="float" value="0.25" min="0.0" max="1.0" label="Probability" />
74 <param name="prob1" size="3" type="float" value="0.5" min="0.0" max="1.0" label="Probability" /> 65 <param name="prob1" size="3" type="float" value="0.5" min="0.0" max="1.0" label="Probability" />
75 <param name="prob2" size="3" type="float" value="0.75" min="0.0" max="1.0" label="Probability" /> 66 <param name="prob2" size="3" type="float" value="0.75" min="0.0" max="1.0" label="Probability" />
76 <repeat name="probabilities" title="Probabilities"> 67 <repeat name="probabilities" title="Probabilities">
77 <param name="prob" size="3" type="float" value="0.5" min="0.0" max="1.0" label="Probability" /> 68 <param name="prob" size="3" type="float" value="0.5" min="0.0" max="1.0" label="Probability" />
78 </repeat> 69 </repeat>
79 </section> 70 </section>
80 </when> 71 </when>
72 <when value="curves" />
81 </conditional> 73 </conditional>
82 </xml> 74 </xml>
83 75
84 <xml name="plot-sum"> 76 <xml name="plot-sum">
85 <section name="plotsum" title="Summary plot" expanded="True"> 77 <section name="plotsum" title="Summary plot" expanded="True">
86 <!-- conditional group by --> 78 <!-- conditional group by -->
87 <conditional name="conditionalgroupby"> 79 <conditional name="conditionalgroupby">
88 <!-- group by --> 80 <!-- group by -->
89 <param name="groupby" type="select" label="Group by" help="How tests should be grouped."> 81 <param name="groupby" type="select" label="Group by" help="How tests should be grouped.">
90 <option value="none">No plot</option> 82 <option value="none">No plot</option>
91 <option value="test">Group by test</option> 83 <option value="test">Group by test</option>
92 <option value="feature">Group by feature</option> 84 <option value="feature">Group by feature</option>
93 </param> 85 </param>
86 <when value="none" />
94 <when value="test"> 87 <when value="test">
95 <param name="testalphaplot" size="3" type="float" value="0.05" min="0.0" max="1.0" label="Level of the test (alpha)" /> 88 <param name="testalphaplot" size="3" type="float" value="0.05" min="0.0" max="1.0" label="Level of the test (alpha)" />
96 <param name="testonlysig" type="boolean" truevalue="TRUE" falsevalue="FALSE" label="Plot only significant tests" /> 89 <param name="testonlysig" type="boolean" truevalue="TRUE" falsevalue="FALSE" label="Plot only significant tests" />
97 </when> 90 </when>
98 <when value="feature"> 91 <when value="feature">
99 <param name="featurealphaplot" size="3" type="float" value="0.05" min="0.0" max="1.0" label="Level of the test (alpha)" /> 92 <param name="featurealphaplot" size="3" type="float" value="0.05" min="0.0" max="1.0" label="Level of the test (alpha)" />
100 <param name="featureonlysig" type="boolean" truevalue="TRUE" falsevalue="FALSE" label="Plot only significant tests" /> 93 <param name="featureonlysig" type="boolean" truevalue="TRUE" falsevalue="FALSE" label="Plot only significant tests" />
101 </when> 94 </when>
102 </conditional> 95 </conditional>
103 </section> 96 </section>
104 </xml> 97 </xml>
105 </macros> 98 </macros>