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14
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Why p value inconsistent when using different number of pathway score?
limma
11 days ago • updated 5 hours ago
Chris
• 0
8
votes
6
replies
1.7k
views
SGSeq: moving toward diffex from SGSeq analysis
sgseq
rnaseq
updated 21 hours ago by
Leonard Goldstein
▴ 200 • written 6.7 years ago by
Sylvain Foisy
▴ 80
1
vote
4
replies
432
views
DEseq2 coefficient
DESeq2
coefficient
9 weeks ago • updated 5 hours ago
JKim
• 0
0
votes
3
replies
155
views
log2FoldChange value is way too different when compared with counts(dds)
DESeq2
updated 3 hours ago by
Michael Love
41k • written 1 day ago by
HAK
• 0
0
votes
3
replies
86
views
Store output of matchPWM()
biostrings
Biostrings
updated 5 hours ago by
James W. MacDonald
65k • written 8 hours ago by
mat149
▴ 70
0
votes
2
replies
55
views
Get genomic coordinates of CpGs sites (chromosomes, genomic position)
GenomeWideAssociation
SequenceAnnotation
MethylationArray
GenomicDistributionsData
written 23 hours ago by
Yveto
• 0
0
votes
1
reply
29
views
More regions in union when increasing DBA$config$mergeOverlap
DiffBind
updated 1 hour ago by
Rory Stark
★ 5.2k • written 14 hours ago by
Ian D.
▴ 70
0
votes
1
reply
49
views
Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call when trying to subset pheatmap
DESeq2
updated 3 hours ago by
ATpoint
★ 4.1k • written 4 hours ago by
angelathuynh5
• 0
0
votes
0
replies
32
views
Empty table plot using plotGseaTable()
fgsea
5 hours ago • updated 3 hours ago
Chris
• 0
0
votes
0
replies
7
views
Deseq2 and Normalization of RNA sequencing data
DESeq2
1 hour ago
kcarey
• 0
0
votes
0
replies
9
views
Differences in differential analysis methods for RNA-Seq
DESeq2
StatisticalMethod
Proteomics
DifferentialExpression
RNASeq
1 hour ago
james.zhang20
• 0
1
vote
0
replies
14
views
News:
Bioconductor 3.19 is Released!
Release
Bioconductor
Packages
Software
4 hours ago
shepherl
3.8k
12 results • Page
1 of 1
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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…
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…
Votes
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
Answer: Fold change calculation in Diffbind vs. DESEQ2?
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
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tangming2005
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