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comparison braker.xml @ 4:f432bb944473 draft default tip

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planemo upload for repository https://github.com/genouest/galaxy-tools/tree/master/tools/braker commit d6f7fd50bc001327f69d5391d236aecba0eb64b3
author genouest
date Thu, 16 Jan 2025 10:40:33 +0000
parents ac13de106677
children
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3:ac13de106677 4:f432bb944473
80 <param argument="--rounds" type="integer" value="5" label="Number of optimization rounds used in optimize_augustus.pl" /> 80 <param argument="--rounds" type="integer" value="5" label="Number of optimization rounds used in optimize_augustus.pl" />
81 </section> 81 </section>
82 82
83 <section name="advanced" expanded="false" title="Advanced"> 83 <section name="advanced" expanded="false" title="Advanced">
84 <param argument="--UTR" type="boolean" checked="false" truevalue="--UTR=on" falsevalue="" label="" help="Experimental, requires RNASeq data (bam) and a softmasked genome" /> 84 <param argument="--UTR" type="boolean" checked="false" truevalue="--UTR=on" falsevalue="" label="" help="Experimental, requires RNASeq data (bam) and a softmasked genome" />
85 <param argument="--filterOutShort" type="boolean" checked="false" truevalue="--filterOutShort" falsevalue="" label="Filter out too short traingin gene predicted by GeneMark-EX" /> 85 <param argument="--filterOutShort" type="boolean" checked="false" truevalue="--filterOutShort" falsevalue="" label="Filter out too short training gene predicted by GeneMark-EX" />
86 <param argument="--eval" type="data" format="gtf" optional="true" label="Reference set to evaluate predictions" help="using evaluation scripts from GaTech" /> 86 <param argument="--eval" type="data" format="gtf" optional="true" label="Reference set to evaluate predictions" help="using evaluation scripts from GaTech" />
87 <param argument="--eval_pseudo" type="data" format="gff3" optional="true" label="File with pseudogenes that will be excluded from accuracy evaluation" /> 87 <param argument="--eval_pseudo" type="data" format="gff3" optional="true" label="File with pseudogenes that will be excluded from accuracy evaluation" />
88 </section> 88 </section>
89 89
90 <param name="output_format" type="select" label="Output format"> 90 <param name="output_format" type="select" label="Output format">