User: bhgyu

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bhgyu • 30
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Posts by bhgyu

<prev • 35 results • page 1 of 4 • next >
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Normalize to cell number
... Hi there,  I'm trying to work out a function or find a package that lets me normalize omics data to cell number.  So after counting cells for a certain condition and running the omics experiment, I would use the mean cell count of my bio replicates to normalize to. But I'm not sure what the base ...
normalization normalize cell written 21 days ago by bhgyu • 30
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CAMERA error - isotopeProportionFits
... Hi there, running Isotope with validation detection in R using the CAMERA package - running it as described in vignette.  I get the following error: ​Error in if (!isotopeProportionFits) { : missing value where TRUE/FALSE needed Any solutions? Cheers! ...
metabolomics camera written 5 months ago by bhgyu • 30
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Comment: C: apply Kruskall or other non-parametric test for multiple comparisons
... Hi Chris, cause I'm dealing with very small n of samples and can't be certain conditions for parametric tests are met. ...
written 6 months ago by bhgyu • 30
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apply Kruskall or other non-parametric test for multiple comparisons
... Hello there,  I've been struggling to find a non-parametric test to determine significantly differentially expressed genes in sample sets with lots of features.  Running Wilcox etc always gives me the same p-value even if I do something like: ttest <- apply(dataset, 2, kruskal.test) Does any ...
R ttest kruskal nonparametric written 6 months ago by bhgyu • 30
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Comment: C: Package won't recognise raw data files
... Yes, they were moved between computers, Overwriting "filepaths" works! ...
written 6 months ago by bhgyu • 30
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Comment: C: ReadMSData problem with xcms
... Worked perfectly! Thanks so much Johannes! ...
written 7 months ago by bhgyu • 30
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ReadMSData problem with xcms
... Hello,  I cannot work out how to make the readMSData function work? I get an error message. Anyone had this before and know how to solve it? Cheers! temp = list.files(pattern="*.CDF") readMSData(temp, pdata = pheno) Polarity can not be extracted from netCDF files, please set manually the polari ...
xcms readmsdata written 7 months ago by bhgyu • 30 • updated 7 months ago by Johannes Rainer • 1.3k
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Package won't recognise raw data files
... Hi guys,  I'm running the CAMERA package from bioconductor.  I've created an xcmsSet by c-binding multiple single xcmsSets, which all works fine. However, when I then later come back to the saved session to do annotation, Camera throws in the following error: xsaC <- groupCorr(xsaF) Start gr ...
metabolomics camera R written 7 months ago by bhgyu • 30
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Comment: C: 'names' attribute [12] must be the same length as the vector [6]
... Hi yes correct - 12 data files and 12 distinct names ...
written 7 months ago by bhgyu • 30
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Comment: C: 'names' attribute [12] must be the same length as the vector [6]
... It's this. It's an odd error especially cause I've run this with a similar dataset without these issues before... class(raw) [1] "OnDiskMSnExp" attr(,"package") [1] "MSnbase"     ...
written 7 months ago by bhgyu • 30

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