Can someone tell me how to analyse the GCMS data fro Agilent chemstation and also to find the peak area of the significant peaks matching our compound of interest?
You can use the internal standard procedure by adding a know standard compound with know concentration to your sample and comparing peaks before and after the addition.
Peak area's are found by preforming integration of the chromatogram. This involves deciding what part of the signal is baseline (with noise) and witch part is signal (a peak probably also with noise) The procedure to follow differs for each software environment . Some programs require that you create a peak table (retention times, noise, peak parameters,....) first other allow manual integration. Check your software manual, a lot of them are on internet.
The thing with internal standard and comparing peak(area's) is the next step in preforming quantification of compounds
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