Mercurial > repos > bgruening > deeptools

comparison bamCompare.xml @ 66:1dbd76a58d8b draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/fidelram/deepTools/tree/master/galaxy/wrapper/ commit f720d773e34ad90d14d7cae77c1a0bb5d126102c-dirty
author galaxyp
date Sat, 30 May 2015 13:55:46 -0400
parents 9bee2c86eeb1
children
comparison
equal deleted inserted replaced
65:9bee2c86eeb1 66:1dbd76a58d8b
107 </when> 107 </when>
108 </conditional> 108 </conditional>
109 109
110 <conditional name="comparison"> 110 <conditional name="comparison">
111 <param name="type" type="select" 111 <param name="type" type="select"
112 label="How to compare the two files"> 112 label="How to compare the two files"
113 help="The default is to output the log2ratio between the two samples.
114 The reciprocal ratio returns the negative of the inverse of the ratio if
115 the ratio is less than 0. The resulting values are interpreted as negative fold changes.">
113 <option value="log2" selected="true">Compute log2 of the number of reads ratio</option> 116 <option value="log2" selected="true">Compute log2 of the number of reads ratio</option>
114 <option value="ratio">Compute the ratio of the number of reads</option> 117 <option value="ratio">Compute the ratio of the number of reads</option>
115 <option value="subtract">Compute difference (subtract input from treatment) of the number of reads</option> 118 <option value="subtract">Compute difference (subtract input from treatment) of the number of reads</option>
119 <option value="add">Compute the sum of number of reads</option>
120 <option value="reciprocal_ratio">Computes the fold change. If the fold change is less than 1, the negative of the inverse is reported. E.g. A fold change of 10 to 5 would be reported not as 0.5 but as -2</option>
116 </param> 121 </param>
117 <when value="log2"> 122 <when value="log2">
118 <expand macro="pseudocount" /> 123 <expand macro="pseudocount" />
119 </when> 124 </when>
120 <when value="ratio"> 125 <when value="ratio">
126 <expand macro="pseudocount" />
127 </when>
128 <when value="add" />
129 <when value="reciprocal_ratio">
121 <expand macro="pseudocount" /> 130 <expand macro="pseudocount" />
122 </when> 131 </when>
123 <when value="subtract"> 132 <when value="subtract">
124 <conditional name="normalization"> 133 <conditional name="normalization">
125 <param name="type" type="select" label="Normalization method" > 134 <param name="type" type="select" label="Normalization method" >