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Why p value inconsistent when using different number of pathway score?
limma
11 days ago • updated 11 hours ago
Chris
• 0
0
votes
3
replies
92
views
Store output of matchPWM()
biostrings
Biostrings
updated 11 hours ago by
James W. MacDonald
65k • written 14 hours ago by
mat149
▴ 70
1
vote
4
replies
438
views
DEseq2 coefficient
DESeq2
coefficient
9 weeks ago • updated 11 hours ago
JKim
• 0
0
votes
1
reply
82
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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 9 hours ago by
ATpoint
★ 4.1k • written 10 hours ago by
angelathuynh5
• 0
0
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3
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172
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log2FoldChange value is way too different when compared with counts(dds)
DESeq2
updated 9 hours ago by
Michael Love
41k • written 1 day ago by
HAK
• 0
0
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1
reply
44
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More regions in union when increasing DBA$config$mergeOverlap
DiffBind
updated 7 hours ago by
Rory Stark
★ 5.2k • written 20 hours ago by
Ian D.
▴ 70
0
votes
2
replies
81
views
Get genomic coordinates of CpGs sites (chromosomes, genomic position)
GenomeWideAssociation
SequenceAnnotation
MethylationArray
GenomicDistributionsData
1 day ago • updated 5 hours ago
Yveto
• 0
2
votes
0
replies
23
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News:
Bioconductor 3.19 is Released!
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10 hours ago
shepherl
3.8k
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15
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Deseq2 and Normalization of RNA sequencing data
DESeq2
7 hours ago
kcarey
• 0
0
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0
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41
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Empty table plot using plotGseaTable()
fgsea
11 hours ago • updated 9 hours ago
Chris
• 0
0
votes
0
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19
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Differences in differential analysis methods for RNA-Seq
DESeq2
StatisticalMethod
Proteomics
DifferentialExpression
RNASeq
7 hours ago
james.zhang20
• 0
11 results • Page
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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…
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
by
ATpoint
★ 4.1k
Here the error probably means that you habe genes where expression scross all samples is the same. Rowscaling is value minus mean divided b…
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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