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comparison macs2_macros.xml @ 9:acbd3fb47f90 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/macs2 commit 586ecaebf9e6020fac2674fbda368e293d1c9bc2
author iuc
date Thu, 25 Jan 2018 02:11:52 -0500
parents e8a060164e11
children 640d3af5d833
comparison
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8:e8a060164e11 9:acbd3fb47f90
7 <requirement type="package" version="3.4">r-base</requirement> 7 <requirement type="package" version="3.4">r-base</requirement>
8 <yield /> 8 <yield />
9 </requirements> 9 </requirements>
10 </xml> 10 </xml>
11 11
12 <token name="@home_dir@"><![CDATA[
13 export PYTHON_EGG_CACHE=`pwd` &&
14 ]]></token>
15
12 <xml name="conditional_effective_genome_size"> 16 <xml name="conditional_effective_genome_size">
13 <conditional name="effective_genome_size_options"> 17 <conditional name="effective_genome_size_options">
14 <param name="effective_genome_size_options_selector" type="select" label="Effective genome size" 18 <param name="effective_genome_size_options_selector" type="select" label="Effective genome size"
15 help="The effective genome size is the portion of the genome that is mappable. Large fractions of the genome are stretches of Ns that should be discarded. 19 help="The effective genome size is the portion of the genome that is mappable. Large fractions of the genome are stretches of Ns that should be discarded.
16 Also, if repetitive regions were not included in the mapping of reads, the effective genome size needs to be adjusted accordingly. (--gsize)"> 20 Also, if repetitive regions were not included in the mapping of reads, the effective genome size needs to be adjusted accordingly. Sizes are from the MACS2 website (--gsize)">
17 <option value="2451960000">H. sapiens (2,451,960,000)</option> 21 <option value="2700000000">H. sapiens (2.7e9)</option>
18 <option value="2150570000">M. musculus (2,150,570,000)</option> 22 <option value="1870000000">M. musculus (1.87e9)</option>
19 <option value="121400000">D. melanogaster (121,400,000)</option> 23 <option value="120000000">D. melanogaster (1.2e8)</option>
20 <option value="93260000">C. elegans (93,260,000)</option> 24 <option value="90000000">C. elegans (9e7)</option>
21 <option value="12400000">S. cerevisiae (12,400,000)</option>
22 <option value="user_defined">User defined</option> 25 <option value="user_defined">User defined</option>
23 </param> 26 </param>
24 <when value="2451960000" /> 27 <when value="2700000000" />
25 <when value="2150570000" /> 28 <when value="1870000000" />
26 <when value="121400000" /> 29 <when value="120000000" />
27 <when value="93260000" /> 30 <when value="90000000" />
28 <when value="12400000" />
29 <when value="user_defined"> 31 <when value="user_defined">
30 <param name="gsize" type="integer" label="Effective genome size" value=""/> 32 <param name="gsize" type="integer" label="Effective genome size" value=""/>
31 </when> 33 </when>
32 </conditional> 34 </conditional>
33 </xml> 35 </xml>