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Comment: mas5calls function doesn't work; mirna40cdf problem
by
James W. MacDonald
62k
Except that the miRNA arrays are sort of dumb. An miRNA is 21-23 nt long, and Affy probes are ... 25 nt long. So a 'probeset' for an Affy m…
Comment: Combat and dds Object
by
ATpoint
★
2.1k
I cannot reproduce this, please provide a minimal reproducible example.
This here works just fine:
```r
library(DESeq2)
library(sva)
dd…
Comment: pathview says my nonmodel species is unknown: "species invalid"
by
nute11a
•
0
Restarting R worked :) thanks!!
Answer: Different summary() and results() values in DeSeq2
by
swbarnes2
★
1.2k
211k genes? That's a lot.
It looks like the difference is in the gene filtering. The top one is filtering way genes with a mean counts <…
Comment: mas5calls function doesn't work; mirna40cdf problem
by
Guido Hooiveld
★
3.5k
Also: you could consider using `DABG` for present/absent calls. James elaborated on this in this thread: https://support.bioconductor.org/p…
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