comparison bigwigCompare.xml @ 11:f90c8a697ee9 draft

planemo upload for repository https://github.com/fidelram/deepTools/tree/master/galaxy/wrapper/ commit 999ec5d9b5882702497d8117a7d26536a67e19ca

10:163f2951146c

            <param name="comparison_select" type="select"
                label="How to compare the two files"
                help="The default is to output the log2ratio between the two samples.
                The reciprocal ratio returns the negative of the inverse of the ratio if
                the ratio is less than 0. The resulting values are interpreted as negative
                fold changes. To output the scaled values from the first or second BAM file,
                select 'first' or 'second'.">
                <option value="log2" selected="true">Compute log2 of the number of reads ratio</option>
                <option value="ratio">Compute the ratio of the number of reads</option>
                <option value="subtract">Compute difference (subtract input from treatment) of the number of reads</option>
                <option value="add">Compute the sum of number of reads</option>
                <option value="reciprocal_ratio">Computes the fold change. If the fold change is less than 1, the negative of the inverse is reported. E.g. A fold change of 10 to 5 would be reported not as 0.5 but as -2</option>
                <option value="first">Returns the scaled value of the first BAM file</option>
                <option value="second">Returns the scaled value of the second BAM file</option>
            </param>
            <when value="log2">
                <expand macro="pseudocount" />
            </when>
            <when value="ratio">
                <expand macro="pseudocount" />
            </when>
            <when value="subtract" />
            <when value="add" />
            <when value="first" />
            <when value="second" />
            <when value="reciprocal_ratio">
                <expand macro="pseudocount" />
            </when>

11:f90c8a697ee9

            <param name="comparison_select" type="select"
                label="How to compare the two files"
                help="The default is to output the log2ratio between the two samples.
                The reciprocal ratio returns the negative of the inverse of the ratio if
                the ratio is less than 0. The resulting values are interpreted as negative
                fold changes. To output the scaled values from the first or second bigWig file,
                select 'first' or 'second'.">
                <option value="log2" selected="true">Compute log2 of the signal ratio</option>
                <option value="ratio">Compute the ratio signals</option>
                <option value="subtract">Compute difference (subtract input from treatment) of the signal</option>
                <option value="add">Compute the sum of the signals</option>
                <option value="mean">Compute the mean of the signal in the two files</option>
                <option value="reciprocal_ratio">Computes the fold change. If the fold change is less than 1, the negative of the inverse is reported. E.g. A fold change of 10 to 5 would be reported not as 0.5 but as -2</option>
                <option value="first">Returns the scaled value of the first bigWig file</option>
                <option value="second">Returns the scaled value of the second bigWig file</option>
            </param>
            <when value="log2">
                <expand macro="pseudocount" />
            </when>
            <when value="ratio">
                <expand macro="pseudocount" />
            </when>
            <when value="subtract" />
            <when value="add" />
            <when value="mean" />
            <when value="first" />
            <when value="second" />
            <when value="reciprocal_ratio">
                <expand macro="pseudocount" />
            </when>