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Comment: fail to use addPerROIQC in Rmd
by
joseph.joonsang
• 0
Yes, I did. Here is my code. data.path <- "~/GeoMx_best_practice/data/" filepath <- paste(data.path, "Joon_QC_NPC_4_…
Comment: fail to use addPerROIQC in Rmd
by
shepherl
4.1k
Just covering all bases. You defined spe earlier in the R markdown that is not shown?
Comment: Open Sesame: in what genes are my differentially methylated probes!!
by
alyssa-daniel
• 0
@zhouwanding I have a question regarding DML analysis. I understand the Est_ output is describing the difference in methylation between the…
Comment: DESeq2 dispersion estimates fitting drastically different based on explanatory v
by
Sam
• 0
Here is the explanatory variables![enter image description here][1] uses if that helps address the problem as well [1]: /media/images/…
Comment: Merge Replicates vs Mixed Model
by
abadgerw
• 0
Thanks, @gabrielhoffman My understanding is that both options would still be mixed models: Even with technical replicates (3 wells per d…
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Comment: What type of counts data to import for performing Isoform analysis in edgeR
Answer: What type of counts data to import for performing Isoform analysis in edgeR
Transcript-level differential expression using DESeq2
Comment: What type of counts data to import for performing Isoform analysis in edgeR
Answer: What type of counts data to import for performing Isoform analysis in edgeR
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