annotate test-data/gc-ramclustr-define-experiment.csv @ 12:f52181a205d3 draft default tip

planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/ramclustr commit c562be4e9eb71470b480752aafe16722aee72bb1

parameter,Value,Description
,,
Experimental Design,,
Experiment,experiment_gc,"Experiment name, no spaces."
Species,mus musculus,Genus species from which samples are derived.
Sample,serum,"Type of sample (e.g., serum, leaf)."
Contributer,recetox,Your or your PI's name.
platform,GC-MS,Either GC-MS or LC-MS.
,,
GC-MS,,
chrominst,ISQ 7000,Model of LC/GC instrument.
msinst,ISQ7K-VPI,Model of MS instrument.
column,These columns enable analysis of ppm levels of amines without column priming,Column description.
InletTemp,33,Temperature of inlet.
TransferTemp,23,Temperature of GC to MS transfer line.
mstype,QTOF,"Type of mass spectrometer (one of QQQ, TOF, QTOF, Orbi, Q)."
msmode,positive,Positive or negative ion mode.
ionization,AP,"Ionization (EI, AP, or CI)."
msscanrange,100,Scan range used for acquisition.
scantime,0.2,Time for each full scan spectrum (e.g. 0.2 seconds).
deriv,TMS,"Derivitization (TMS, TBDMS, or None)."
MSlevs,1.0,Number of levels of energy acquired - 1 typically.
,,
LC-MS,,
chrominst,fill,Model of LC/GC instrument.
msinst,fill,Model of MS instrument.
column,fill,Column description.
solvA,fill,Solvent A composition.
solvB,fill,Solvent B composition.
CE1,fill,Collision energy of acquisition of MS data.
CE2,fill,Collision energy of acquisition for MSe/idMSMS data (when applicable).
mstype,fill,"Type of mass spectrometer (one of QQQ, TOF, QTOF, Orbi, Q)."
msmode,fill,Positive or negative ion mode.
ionization,fill,"Ionization (EI, AP, or CI)."
colgas,fill,Gas used for collisional dissociation.
msscanrange,fill,Scan range used for acquisition.
conevol,fill,Cone voltage used for acquisition.
MSlevs,fill,Number of levels of energy acquired - 1 typically.