I analyzed a pep.xml file with TPP 4.7.0 that was previously analyzed with TPP4.6.x and found this "interesting" difference in the values ASAPRatio is using for the quant_label_masses. Note that the analysis done with 4.7.0 the light n-terminal modification is the mass of a proton not the mass of the light label I entered. The correct values are shown for the 4.6.x analysis.
(4.7.0) <analysis_timestamp analysis="asapratio" time="2014-07-07T10:27:59" id="1"> <asapratio_timestamp quant_label_masses="K[170.142,176.180]n[1.008,49.092]"/> </analysis_timestamp> (4.6.x) <analysis_timestamp analysis="asapratio" time="2013-01-02T16:26:33" id="1"> <asapratio_timestamp quant_label_masses="K[170.142,176.217]n[43.055,49.092]"/> </analysis_timestamp> Before posting this I upgraded from TPP 4.7.0 to 4.7.1 and the problem is now fixed. The correct quant_label_masses are being used and I get the proper massdiffs for calculating the peak areas for the light and heavy pairs. Cheers, Brian Brian Hampton Protein Analysis Lab Center for Vascular and Inflammatory Diseases University of Maryland School of Medicine 655 West Baltimore Street BRB 7-018 Baltimore MD 21201 V: 410-706-8207 -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. To post to this group, send email to [email protected]. Visit this group at http://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
