Repository revision

Revision: 25:9f03c8587d6b

Repository 'prims_metabolomics2'

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/pieterlukasse/prims_metabolomics2

XCMS Get EICs tool metadata

Miscellaneous

Name: XCMS Get EICs

Description: Extracts EICs for a given list of masses

Id: xcms_get_mass_eic

Guid: toolshed.g2.bx.psu.edu/repos/pieterlukasse/prims_metabolomics2/xcms_get_mass_eic/0.0.4

Version: 0.0.4

Version command string: None

Display in tool panel: True

Version lineage of this tool (guids ordered most recent to oldest)

toolshed.g2.bx.psu.edu/repos/pieterlukasse/prims_metabolomics2/xcms_get_mass_eic/0.0.4 (this tool)

xcms_get_mass_eic

Requirements (dependencies defined in the <requirements> tag set)

Requirements:

name

version

type

R_bioc_metams

3.1.1

package

Additional information about this tool

Command:

xcms_get_mass_eic.r 
	    $xsetData
		$rtStart
		$rtEnd
		#if $massParameters.massParametersType == "window"
			$massParameters.mzStart 
			$massParameters.mzEnd
			-1
			"."
		#else
			-1
			-1
			"$massParameters.mzList" 
			$massParameters.mzTolPpm
		#end if  
		"$sampleNames" 
		$combineSamples
		$rtPlotMode
		$htmlReportFile
		$htmlReportFile.files_path
		$outLogFile

Interpreter: Rscript

Forces a history refresh: False

Functional tests

name

inputs

outputs

required files

Test-1