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23 results • Page 1 of 1
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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…
Votes
Answer: Error in Create switchAnalyzeRlist
Answer: Error in Create switchAnalyzeRlist
A: DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Ge
DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Gene symbol
Answer: the difference between getGEO and getGEOSuppFiles
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