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DESeq2
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443
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DEseq2 coefficient
DESeq2
coefficient
9 weeks ago • updated 14 hours ago
JKim
• 0
0
votes
3
replies
181
views
log2FoldChange value is way too different when compared with counts(dds)
DESeq2
updated 11 hours ago by
Michael Love
41k • written 1 day ago by
HAK
• 0
0
votes
1
reply
86
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Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call when trying to subset pheatmap
DESeq2
updated 12 hours ago by
ATpoint
★ 4.1k • written 12 hours ago by
angelathuynh5
• 0
0
votes
1
reply
33
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Differences in differential analysis methods for RNA-Seq
DESeq2
StatisticalMethod
Proteomics
DifferentialExpression
RNASeq
updated 1 hour ago by
ATpoint
★ 4.1k • written 10 hours ago by
james.zhang20
• 0
0
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0
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18
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Deseq2 and Normalization of RNA sequencing data
DESeq2
10 hours ago
kcarey
• 0
5 results • Page
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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…
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
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