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Comment: using featureCounts (Subread) to count only spliced reads per gene - behavior of
by
Gordon Smyth
48k
The splitOnly option is design to strictly return reads that identify exon junctions, not simply to find read-pairs overlapping more than o…
Comment: blockwiseModule crashes in the end and doesn't generate modules
by
aletheabrown051
•
0
Re: [drift boss][1]
Have you fixed this problem yet?
[1]: https://driftboss.io
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…
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