comparison ngs-tools_split_by_barcode.xml @ 10:9fa7fd4d78bb draft default tip

Uploaded

9:af02b22ad482

<tool id="ngs-tools_split_by_barcode" name="Barcode Splitter (ngs-tools)" force_history_refresh="True" version="1.0.1">
	<description></description>
    <requirements>
        <requirement type="package" version="0.1.6">ngs-tools</requirement>
    </requirements>
    <command>
        ngs-tools split-by-barcode
            $trim_barcode $input_format.format
            --barcode-size $barcode_length --max-distance $max_distance

            </when>
        </conditional>
        <param format="tabular" name="barcode_index" type="data" label="Barcodes index" help="See below for description." />
        <param name="barcode_length" type="integer" size="3" value="11" label="Barcode length" help="Please specify the barcode length." />
        <param name="barcodes" type="text" label="Barcodes to use" help="Comma separated list of barcodes to use. By default all barcodes in the 'Barcodes index' are used." />
        <param name="trim_barcode" type="select" label="Trim the barcode" help="By default barcodes are trimmed from the resulting splitted datasets">
            <option value="" selected="true">Yes</option>
            <option value="--keep-barcode">No</option>
        </param>
        <param name="max_distance" type="integer" size="3" value="2" label="Number of allowed polymorphisms" help="Max Levenshtein's distance when looking for mutated barcodes." />
	</inputs>
	
	<outputs>
		<data format="interval" name="output1" />
	</outputs>
<help>

**What it does**

This tool splits FASTQ or FASTA datasets into several datasets, using barcodes as the split criteria.

This tool is based on `ngs-tools`__ by Carlos Borroto <[e-mail]>.

 .. __: https://github.com/cjav/ngs-tools/
 
</help>
</tool>

10:9fa7fd4d78bb

<tool id="ngs-tools_split_by_barcode" name="Barcode Splitter (ngs-tools)" force_history_refresh="True" version="1.0.1">
	<description></description>
    <requirements>
        <requirement type="package" version="0.1.8">ngs-tools</requirement>
    </requirements>
    <command>
        ngs-tools split-by-barcode
            $trim_barcode $input_format.format
            --barcode-size $barcode_length --max-distance $max_distance

            </when>
        </conditional>
        <param format="tabular" name="barcode_index" type="data" label="Barcodes index" help="See below for description." />
        <param name="barcode_length" type="integer" size="3" value="11" label="Barcode length" help="Please specify the barcode length." />
        <param name="barcodes" type="text" label="Barcodes to use" help="Comma separated list of barcodes to use. By default all barcodes in the 'Barcodes index' are used." />
        <param name="trim_barcode" type="select" label="Trim the barcode" help="By default barcodes are trimmed from the resulting split datasets">
            <option value="" selected="true">Yes</option>
            <option value="--keep-barcode">No</option>
        </param>
        <param name="max_distance" type="integer" size="3" value="2" label="Number of allowed polymorphisms" help="Max Levenshtein's distance when looking for mutated barcodes." />
	</inputs>
	
	<outputs>
		<data format="tabular" name="output1" />
	</outputs>
    <help>

**What it does**

This tool splits FASTQ or FASTA datasets into several datasets, using barcodes as the split criteria.

This tool is based on `ngs-tools`__ by Carlos Borroto <[e-mail]>.

 .. __: https://github.com/cjav/ngs-tools/
 
    </help>
</tool>