5.1 years ago
Matthew Thornton
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350
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2
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3
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8
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898
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pcantalupo
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10
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4
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983
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4
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5
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2.3k
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740
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5
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1.2k
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7
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12
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7.0k
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2
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2
replies
1.1k
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0
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1
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1.0k
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1
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2
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916
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2
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5
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1.2k
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0
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2
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1.0k
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1
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3
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1.7k
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updated 4.9 years ago by
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170
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4.5k
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10
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20
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4
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1.0k
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4
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5
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2.0k
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3
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1.2k
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0
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7
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1.5k
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updated 4.1 years ago by
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written 4.2 years ago by
gil.stelzer
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0
0
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780
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1
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3
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1.8k
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1
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1
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1.0k
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updated 3.3 years ago by
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written 3.3 years ago by
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740
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4
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1.2k
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updated 3.2 years ago by
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6
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1.4k
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wesselyf
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0
2
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4
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1.3k
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0
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4
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740
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2
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0
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1
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872
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1
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653
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updated 2.3 years ago by
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270
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2
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673
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967
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20
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50
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Comment: Store output of matchPWM()
by
James W. MacDonald
65k
Here's a self contained reproducible example, using part of the example in `?matchPWM`
```
> library(Biostrings)
> data(HNF4alpha)
> libr…
Comment: DEseq2 coefficient
by
JKim
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Hi Dr. Love,
I'm sorry to ask another question to my old post.
If the design isn't balanced, the interpretation of coefficients will be…
Comment: Store output of matchPWM()
by
mat149
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out <- do.call(c, lapply(hitlist, function(x) as(x, "IRanges")))
Error in do.call(c, lapply(hitlist, function(x) as(x, "IRanges"))) :
'…
Answer: Store output of matchPWM()
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James W. MacDonald
65k
Something like this?
```
ind <- as.logical(sapply(hitlist, length))
out <- do.call(c, lapply(hitlist, function(x) as(x, "IRanges")))
…
Answer: log2FoldChange value is way too different when compared with counts(dds)
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This has been asked before, but with a multi factor design, the LFC for coefficient X adjust for the others, in a way that is often hard to…
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