User: ambika.pokhrel53

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Posts by ambika.pokhrel53

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Comment: C: Log2 fold change value in DESeq2
... Thank you so much for clarification Michael ...
written 4 weeks ago by ambika.pokhrel530
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Log2 fold change value in DESeq2
... Hello everyone, I am quite confused regarding the Log 2 fold change calculations. I noticed that it gives NA when the gene expression is zero across samples. But how does it calculate LFC value if the expression is 0 in control and higher expression in other treated samples? Does it gives NA to tho ...
rnaseq deseq2 written 4 weeks ago by ambika.pokhrel530 • updated 4 weeks ago by Michael Love15k
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Comment: C: Dseq single factor and 4 levels experiment design
... I tried to compare t1 vs control like: res<-results(dds, contrast= c("condition","t1", "control")) res<-res[order(res$padj),] and this gave me a table with 6 columns. One thing I am confused is I have 2 replicates so, does it combines the control and T1 of both replicates and gives the outpu ...
written 5 weeks ago by ambika.pokhrel530
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Dseq single factor and 4 levels experiment design
... Hi everyone , I am trying to see differential expression of genes across my samples ( control, T1, T2, T4) and I have 1 replicates for each, i.e. I have 8 samples in total. I did the transcripts count from Htseq and now while trying to compare between conditions I am so confused. I dont know how to ...
rnaseq deseq2 written 5 weeks ago by ambika.pokhrel530 • updated 5 weeks ago by Michael Love15k

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