Mercurial > repos > kkonganti > cfsan_bettercallsal

comparison cfsan_bettercallsal.xml @ 5:0fb33799f347

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"planemo upload"
author kkonganti
date Tue, 06 Jun 2023 09:59:21 -0400
parents fa1d249ca172
children 83ed52d5af32
comparison
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4:fa1d249ca172 5:0fb33799f347
68 label="Dataset list of unpaired short reads or long reads" /> 68 label="Dataset list of unpaired short reads or long reads" />
69 <param name="fq_suffix" value=".fastq.gz" type="text" label="Suffix of the Single-End FASTQ"/> 69 <param name="fq_suffix" value=".fastq.gz" type="text" label="Suffix of the Single-End FASTQ"/>
70 </when> 70 </when>
71 <when value="paired"> 71 <when value="paired">
72 <param name="input_pair" type="data_collection" collection_type="list:paired" format="fastq,fastq.gz" label="List of Dataset pairs" /> 72 <param name="input_pair" type="data_collection" collection_type="list:paired" format="fastq,fastq.gz" label="List of Dataset pairs" />
73 <param name="fq_suffix" value="_R1_001.fastq.gz" type="text" label="Suffix of the R1 FASTQ"/> 73 <param name="fq_suffix" value="_R1_001.fastq.gz" type="text" label="Suffix of the R1 FASTQ"
74 <param name="fq2_suffix" value="_R2_001.fastq.gz" type="text" label="Suffix of the R2 FASTQ"/> 74 help="For any data sets downloaded from NCBI into Galaxy, change this to _forward.fastq.gz suffix."/>
75 <param name="fq2_suffix" value="_R2_001.fastq.gz" type="text" label="Suffix of the R2 FASTQ"
76 help="For any data sets downloaded from NCBI into Galaxy, change this to _reverse.fastq.gz suffix./>
75 </when> 77 </when>
76 </conditional> 78 </conditional>
77 <param name="tuspy_n" optional="true" value="10" type="integer" label="Enter the number of top unique serotypes to retain after initial MASH screen step" 79 <param name="tuspy_n" optional="true" value="10" type="integer" label="Enter the number of top unique serotypes to retain after initial MASH screen step"
78 help="The default value of 10 is suitable for almost all scenarios."/> 80 help="The default value of 10 is suitable for almost all scenarios."/>
79 <param name="bcs_thresholds" type="select" label="Enter the type of base quality thresholds to be set with bettercallsal" 81 <param name="bcs_thresholds" type="select" label="Enter the type of base quality thresholds to be set with bettercallsal"