Biostar PLSDA

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plsda ropls

updated 4.9 years ago by etienne.thevenot ▴ 20 • written 4.9 years ago by michael.eisenring • 0

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MAIT PLS PLSDA PlotPLS PLSModel

5.0 years ago thomas • 0

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Answer: Correlation between two different datasets: between results of RNAseq and absenc by Michael Love 37k

Re: LFC, if you are working with this and then downstream analysis, I'd recommend `lfcShrink` if you aren't already using this. It will shr…

Answer: Strange Dispersion plot by Michael Love 37k

This indeed looks strange, I would immediately suspect some weird batch effects. Try all kinds of diagnostic plots like, boxplot, PCA, corr…

Answer: Correlation between CpG methylation and gene expression from DESeq2-> Normalizat by Michael Love 37k

In this case, can you say why you want to normalize for gene length? In our tximport/tximeta pipeline, it would correct for differential ge…

Comment: Which is the best type of data for correlation or survival analysis by Michael Love 37k

VST is the variance stabilizing transformation, and in the code it produces `vsd` a variance stabilized dataset. VST data = `vsd`. > can I…

Comment: Error in Create switchAnalyzeRlist by bpshtiwan ▴ 10

Definitely, you are right. I Checked the ref file (cDNA fasta and gtf file ) gene Id is different. I downloaded both gtf and cDNA fasts fi…

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Answer: Error in Create switchAnalyzeRlist

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