comparison picard_CollectRnaSeqMetrics.xml @ 9:5eaa8a968300 draft

planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit 1869970193a1878acbc0f8a79b81dd02b37f1dc1

8:3a3234d7a2e8

	 <option value="FIRST_READ_TRANSCRIPTION_STRAND">First read transcription strand</option>
	 <option value="SECOND_READ_TRANSCRIPTION_STRAND">Second read transcription strand</option>
      </param>
      <param name="minimum_length" type="integer" value="500" label="When calculating coverage based values use only use transcripts of this length or greater" help="MINIMUM_LENGTH; default=500"/>
      <repeat name="ignore_list" title="Sequences to ignore" min="0" help="You can provide multiple sequences by clicking the button below">
          <param name="sequence" type="text" size="80" label="Ignore reads matching this sequence"/>
      </repeat>
      <param name="rrna_fragment_percentage" type="float" value="0.8" label="This percentage of the length of a fragment must overlap one of the ribosomal intervals for a read or read pair to be considered rRNA." help="RRNA_FRAGMENT_PERCENTAGE; default=0.8"/>
      <param name="metric_accumulation_level" type="select" label="The level(s) at which to accumulate metrics" multiple="true" help="METRIC_ACCUMULATION_LEVEL">
	 <option value="ALL_READS" selected="True">All reads</option>
	 <option value="SAMPLE">Sample</option>

9:5eaa8a968300

	 <option value="FIRST_READ_TRANSCRIPTION_STRAND">First read transcription strand</option>
	 <option value="SECOND_READ_TRANSCRIPTION_STRAND">Second read transcription strand</option>
      </param>
      <param name="minimum_length" type="integer" value="500" label="When calculating coverage based values use only use transcripts of this length or greater" help="MINIMUM_LENGTH; default=500"/>
      <repeat name="ignore_list" title="Sequences to ignore" min="0" help="You can provide multiple sequences by clicking the button below">
          <param name="sequence" type="text" label="Ignore reads matching this sequence"/>
      </repeat>
      <param name="rrna_fragment_percentage" type="float" value="0.8" label="This percentage of the length of a fragment must overlap one of the ribosomal intervals for a read or read pair to be considered rRNA." help="RRNA_FRAGMENT_PERCENTAGE; default=0.8"/>
      <param name="metric_accumulation_level" type="select" label="The level(s) at which to accumulate metrics" multiple="true" help="METRIC_ACCUMULATION_LEVEL">
	 <option value="ALL_READS" selected="True">All reads</option>
	 <option value="SAMPLE">Sample</option>