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Comment: Gviz and datatracks
by
Malcolm Cook
★
1.5k
what is the value of bgFile? It probably does not have an extension the DataTrack recognizes....
Answer: Large DE LogFC range
by
Michael Love
35k
Agree with ATpoint, look at the genes with large LFC (from lfcShrink) using `plotCounts`. Usually large MLE LFC are from all 0's in one gro…
Comment: Large DE LogFC range
by
ATpoint
▴
970
You could at least show some counts of the genes with large FCs. Also the PCA would help.
Comment: Weird output of DESeq2 when using single sample from one group agains the other
by
Michael Love
35k
See the 2014 paper, the MLE LFC is found via IRLS:
"We use the standard iteratively reweighted least-squares algorithm [12] for each gene’…
Comment: Weird output of DESeq2 when using single sample from one group agains the other
by
FantasticAI
•
0
Thank you for the help. Sorry for keep asking silly questions: I wonder given 2 groups (A and B), and each group has 6 samples, how does th…
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