method and package for imputing spectral counts from masspectrometry
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Yolande Tra ▴ 120
@yolande-tra-4309
Last seen 10.1 years ago
Hello list members, I would like to start a new thread here. Does anyone have experience in imputing spectral counts from mass spectrometry? I have used na.roughfix followed by RFImpute in Random Forest package to impute the missing spectral counts. It seems that the imputation brought skewness in the data. I believe, there must be a solution, instead of filling in a zero. Thank you for sharing your experience. Yolande
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@moshe-olshansky-2329
Last seen 10.1 years ago
Hi Yolande, Do you mean the raw counts coming out of the instrument before any preprocessing? Regards, Moshe. --- On Tue, 26/10/10, Yolande Tra <yolande.tra at="" gmail.com=""> wrote: > From: Yolande Tra <yolande.tra at="" gmail.com=""> > Subject: [BioC] method and package for imputing spectral counts from masspectrometry > To: bioconductor at stat.math.ethz.ch > Received: Tuesday, 26 October, 2010, 11:11 AM > Hello list members, > > I would like to start a new thread here. Does anyone have > experience > in imputing spectral counts from mass spectrometry? I have > used > na.roughfix followed by RFImpute in Random Forest package > to impute > the missing spectral counts. It seems that the imputation > brought > skewness in the data. I believe, there must be a solution, > instead of > filling in a zero. > > Thank you for sharing your experience. > Yolande > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor >
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Yes. Yolande On Tue, Oct 26, 2010 at 1:56 AM, Moshe Olshansky <m_olshansky at="" yahoo.com=""> wrote: > Hi Yolande, > > Do you mean the raw counts coming out of the instrument before any preprocessing? > > Regards, > Moshe. > > --- On Tue, 26/10/10, Yolande Tra <yolande.tra at="" gmail.com=""> wrote: > >> From: Yolande Tra <yolande.tra at="" gmail.com=""> >> Subject: [BioC] method and package for imputing spectral counts from masspectrometry >> To: bioconductor at stat.math.ethz.ch >> Received: Tuesday, 26 October, 2010, 11:11 AM >> Hello list members, >> >> I would like to start a new thread here. Does anyone have >> experience >> in imputing spectral counts from mass spectrometry? I have >> used >> na.roughfix followed by RFImpute in Random Forest package >> to impute >> the missing spectral counts. It seems that the imputation >> brought >> skewness in the data. I believe, there must be a solution, >> instead of >> filling in a zero. >> >> Thank you for sharing your experience. >> Yolande >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor at stat.math.ethz.ch >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor >> >
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