... I was trying to plot PCA using DESeq2 `plotPCA` function and `prcomp` function. However, the variances I obtained was quite different. Why is this?
**Code for PCA using prcomp:**
pca <- prcomp(t(countsPC_batch))
percentage <- round(((pca$sdev^2) ...
... I have RNAseq data taken from two different ENA project IDs (PrjA & PrjB). Both PrjA & PrjB contains test and control samples. PrjA was PE 50bp sequencing while PrjB was SE 100bp. Is it possible we can combine the data to identify DEG between test and control? Would batch effect removal by C ...
... I am using NOISeq to generate Biodetection plot. I have 6 samples and need to place the plots for each sample side by side for easy comparison. As per the manual, it seems I can only visualise two at a time. Is there a way to arrange all the six plots in 2 columns and 3 rows.
I tried the code:
written 11 weeks ago by
ag1805x • 20
... Is it advisable to create WGCN from RNA-seq data generated on different platforms with different read lengths but processed the same way?
Suppose I have 3 datasets with each containing 5 CASE and 5 CONTROL samples.