comparison feature_selection.xml @ 5:24f2624e8a55 draft default tip

planemo upload commit 2797c26edc75e09465ee41fe44091a39d49b36ab-dirty

4:e7561ef82bf1

<stdio>
        <exit_code range="1:" />
</stdio>

<command interpreter="Rscript">feature_selection.R $input $profile $finalset $function1 $resampling $repeat $number $corcutoff $SAMPLING $cores> /dev/null 2>&amp;1 </command>

<inputs>
<param name="input"  type="data" format="rdata" label="Select input data file" help="input .RData file" />
<param name="SAMPLING" type="select"  label="Select Sampling Method for imbalanced data" help="Defualt is with No sampling. you may choose downsample or upsample" >
                <option value="garBage" selected="true">No Sampling</option>
                <option value="downsampling">downsample</option>
                <option value="upsampling">upsample</option>
        </param>
<param name="function1" type="select" display="radio" label="Select appropriate function for algorithm"  >
                <option value="rfFuncs" selected="true">random forest based function </option>
                <option value="lmFuncs">linear model based function</option>
                <option value="treebagFuncs">treebag(CART) based function</option>
                <option value="nbFuncs">neive bayes based function</option>
</param>

<param name="cores" type="select" label="Set Number of Cores " help="default is 1">
                <option value="1" selected="true">1</option>
                <option value="4">4</option>
                <option value="8">8</option>
                <option value="10">10</option>
                <option value="16">16</option>
        </param>


<param name="corcutoff"  type="float" value= "0.8" min="0.0" max = "1.0" label="Select correlation cutoff" help="values bewteen 0-1. fileds above cufoff value removed from data " />
<param name="resampling" type="select" label="Select appropriate resampling method"  >
                <option value="repeatedcv" selected="true">repeatedcv </option>
                <option value="boot">boot</option>
                <option value="cv">cv</option>
                <option value="boot632">boot632</option>
</param>
 <param name="repeat" type="select" label="Set Number of times to repeat" help="default is 3 ">
               <option value="3" selected="true">3</option>
                <option value="5">5</option>
                <option value="7">7</option>
                <option value="10">10</option>
        </param>
<param name="number" type="select" label="Set Number of times Resample" help="default is 10">
                <option value="10" selected="true">10</option>
                <option value="5">5</option>
                <option value="15">15</option>
                <option value="20">20</option>
                <option value="25">25</option>
        </param>

</inputs>

<outputs>
	<data format="data" name="profile"  label="$function1-profile" />
	<data format="rdata" name="finalset" label="Selected_feature.RData "/>

5:24f2624e8a55

<stdio>
        <exit_code range="1:" />
</stdio>

<command interpreter="Rscript">feature_selection.R $input $profile $finalset $function1 $resampling $repeat $number $corcutoff $SAMPLING \${GALAXY_SLOTS:-1} >/dev/null 2>&amp;1 </command>

<inputs>
	<param name="input"  type="data" format="rdata" label="Select input data file" help="input .RData file" />
	<param name="SAMPLING" type="select"  label="Select Sampling Method for imbalanced data" help="Defualt is with No sampling. you may choose downsample or upsample" >
                <option value="garBage" selected="true">No Sampling</option>
                <option value="downsampling">downsample</option>
                <option value="upsampling">upsample</option>
        </param>
	<param name="function1" type="select" display="radio" label="Select appropriate function for algorithm"  >
                <option value="rfFuncs" selected="true">random forest based function </option>
                <option value="lmFuncs">linear model based function</option>
                <option value="treebagFuncs">treebag(CART) based function</option>
                <option value="nbFuncs">neive bayes based function</option>
	</param>

	<param name="corcutoff"  type="float" value= "0.8" min="0.0" max = "1.0" label="Select correlation cutoff" help="values bewteen 0-1. fileds above cufoff value removed from data " />
	<param name="resampling" type="select" label="Select appropriate resampling method"  >
                <option value="repeatedcv" selected="true">repeatedcv </option>
                <option value="boot">boot</option>
                <option value="cv">cv</option>
                <option value="boot632">boot632</option>
	</param>

	<param name="repeat" type="select" label="Set Number of times to repeat" help="default is 3 ">
               <option value="3" selected="true">3</option>
               <option value="5">5</option>
               <option value="7">7</option>
               <option value="10">10</option>
	</param>
	<param name="number" type="select" label="Set Number of times Resample" help="default is 10">
                <option value="10" selected="true">10</option>
                <option value="5">5</option>
                <option value="15">15</option>
                <option value="20">20</option>
                <option value="25">25</option>
	</param>
</inputs>

<outputs>
	<data format="data" name="profile"  label="$function1-profile" />
	<data format="rdata" name="finalset" label="Selected_feature.RData "/>