updated 5.0 years ago by
Gordon Smyth
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written 5.0 years ago by
Jonathan Griffiths
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updated 5.7 years ago by
Gordon Smyth
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written 5.7 years ago by
rogangrant
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Sarah_piggy
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Subread FeatureCounts for Exon level quantification: Length estimate for Exons as low as 1 base-pair
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Gordon Smyth
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written 5.8 years ago by
jennyl.smith12
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dario.beraldi
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updated 4.8 years ago by
Gordon Smyth
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written 4.8 years ago by
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Lucy
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updated 5.1 years ago by
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written 5.1 years ago by
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updated 17 months ago by
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written 17 months ago by
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updated 3.8 years ago by
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written 3.8 years ago by
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updated 4.8 years ago by
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updated 21 months ago by
Gordon Smyth
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written 21 months ago by
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updated 5.2 years ago by
Gordon Smyth
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written 5.2 years ago by
leo_CD
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Comment: Differences in differential analysis methods for RNA-Seq
by
ATpoint
★
4.1k
MAGeCK is a command line tool that is easy to use. I recommend you use it because a) the logFCs from DESeq2 and MAGeCK will be very similar…
Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
by
Yveto
•
0
Thank for your response. It is Illumina 450 K. I use this code
```{r }
library(IlluminaHumanMethylation450kanno.ilmn12.hg19)
annotat…
Answer: More regions in union when increasing DBA$config$mergeOverlap
by
Rory Stark
★
5.2k
I think the documentation is out of sync with the code. Positive values represent gaps between intervals and negative values represent how …
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed):
```
limma::removeBatchEffect(cou…
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
HAK
•
0
Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…
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