comparison rmarkdown_feature_counts.xml @ 16:6290d3e9e44a draft default tip

update

15:b4b2b9c4eaee

        <param type="boolean" name="report_reads" label="reportReads"
               help="logical indicating if read counting result for each read/fragment is saved to a file. If TRUE, read counting results for reads/fragments will be saved to a tab-delimited file that contains four columns including name of read/fragment, status(assigned or the reason if not assigned), name of target feature/meta-feature and number of hits if the read/fragment is counted multiple times. Name of the file is the same as name of the input read file except a suffix '.featureCounts' is added. Multiple files will be generated if there is more than one input read file."
               optional="False" checked="False" truevalue="TRUE" falsevalue="FALSE"/>
    </inputs>
    <outputs>
        <data name="report" format="html" label="tool name report" hidden="false"/>
        <data name="sink_message" format="txt" label="Warnings and Errors" from_work_dir="warnings_and_errors.txt"
              hidden="false"/>
        <data name="feature_counts" format="rdata" label="feature counts" from_work_dir="feature_counts.RData"
              hidden="false"/>
        <data name="feature_counts_csv" format="tabular" label="feature counts (.txt)"

16:6290d3e9e44a

        <param type="boolean" name="report_reads" label="reportReads"
               help="logical indicating if read counting result for each read/fragment is saved to a file. If TRUE, read counting results for reads/fragments will be saved to a tab-delimited file that contains four columns including name of read/fragment, status(assigned or the reason if not assigned), name of target feature/meta-feature and number of hits if the read/fragment is counted multiple times. Name of the file is the same as name of the input read file except a suffix '.featureCounts' is added. Multiple files will be generated if there is more than one input read file."
               optional="False" checked="False" truevalue="TRUE" falsevalue="FALSE"/>
    </inputs>
    <outputs>
        <data name="report" format="html" label="feature counts report" hidden="false"/>
        <data name="sink_message" format="txt" label="Warnings and Errors" from_work_dir="warnings_and_errors.txt"
              hidden="false"/>
        <data name="feature_counts" format="rdata" label="feature counts" from_work_dir="feature_counts.RData"
              hidden="false"/>
        <data name="feature_counts_csv" format="tabular" label="feature counts (.txt)"