Mercurial > repos > iuc > dada2_seqcounts

comparison macros.xml @ 3:7d28da5e9e27 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 8533fe71d1d50f09348da2dc34941724407a1ffe"
author iuc
date Tue, 14 Jul 2020 07:37:34 -0400
parents f74c56549143
children d943081510da
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2:f74c56549143 3:7d28da5e9e27
5 <requirement type="package" version="@DADA2_VERSION@">bioconductor-dada2</requirement> 5 <requirement type="package" version="@DADA2_VERSION@">bioconductor-dada2</requirement>
6 <yield/> 6 <yield/>
7 </requirements> 7 </requirements>
8 </xml> 8 </xml>
9 9
10 <token name="@DADA2_VERSION@">1.14</token> 10 <token name="@DADA2_VERSION@">1.16</token>
11 <token name="@WRAPPER_VERSION@">0</token> 11 <token name="@WRAPPER_VERSION@">0</token>
12 12
13 <xml name="version_command"> 13 <xml name="version_command">
14 <version_command><![CDATA[ 14 <version_command><![CDATA[
15 echo $(R --version | grep version | grep -v GNU)", dada2 version" $(R --vanilla --slave -e "library(dada2); cat(sessionInfo()\$otherPkgs\$dada2\$Version)" 2> /dev/null | grep -v -i "WARNING: ") 15 echo $(R --version | grep version | grep -v GNU)", dada2 version" $(R --vanilla --slave -e "library(dada2); cat(sessionInfo()\$otherPkgs\$dada2\$Version)" 2> /dev/null | grep -v -i "WARNING: ")
122 122
123 The intended use of the dada2 tools for paired sequencing data is shown in the following image. 123 The intended use of the dada2 tools for paired sequencing data is shown in the following image.
124 124
125 .. image:: pairpipe.png 125 .. image:: pairpipe.png
126 126
127 Note: In particular for the analysis of paired collections the collections should be sorted lexicographical
128 before the analysis.
129
127 For single end data you the steps "Unzip collection" and "mergePairs" are not necessary. 130 For single end data you the steps "Unzip collection" and "mergePairs" are not necessary.
128 131
129 More information may be found on the dada2 homepage:: https://benjjneb.github.io/dada2/index.html (in particular tutorials) or the documentation of dada2's R package https://bioconductor.org/packages/release/bioc/html/dada2.html (in particular the pdf which contains the full documentation of all parameters) 132 More information may be found on the dada2 homepage:: https://benjjneb.github.io/dada2/index.html (in particular tutorials) or the documentation of dada2's R package https://bioconductor.org/packages/release/bioc/html/dada2.html (in particular the pdf which contains the full documentation of all parameters)
130 ]]></token> 133 ]]></token>
131 </macros> 134 </macros>