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Recent ...
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Comment: Deseq2 calculated log2foldchange not consistent with RPM in IP-small RNA-seq
by
Shihui
•
0
It makes sense that DeSeq2 normalized FPMs are more accurate. Thank you for the information!
Answer: DiffBind - how to prep the sample matrix when multiple bam files are used by MAC
by
James W. MacDonald
63k
If you essentially combined multiple BAM files in the MACS call, you could then just combine them using `samtools cat`, in which case you o…
Comment: Deseq2 calculated log2foldchange not consistent with RPM in IP-small RNA-seq
by
Michael Love
40k
I can rephrase your question as:
Why is number of reads not the superior estimate for the scaling factor (the "m" in rpm).
There are som…
Comment: Deseq2 calculated log2foldchange not consistent with RPM in IP-small RNA-seq
by
Shihui
•
0
Hi Michael,
Yes I manually calculated the RPMs by dividing each genes RPM to the library read depth. I didn't do any other normalization …
Comment: shinyMethyl - saving the file
by
dorota.komar
•
0
I tried printing the page as pdf, unfortunately I get the same problem. I guess for now, I will need to save the graphs separately :)
Than…
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