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betaPrior
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reset
1
vote
8
replies
3.8k
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DESeq2: betaPrior changes significance dramatically
deseq2
betaPrior
shrinkage
significance
6.0 years ago
brynedal
▴ 40
5
votes
4
replies
2.1k
views
lfcShrink behavior with homogeneous expression dataset
deseq2
lfcshrink
betaprior
updated 5.8 years ago by
Michael Love
41k • written 5.8 years ago by
mat.lesche
▴ 90
0
votes
6
replies
1.5k
views
large range of LFC in DESeq2
deseq2
lfc
betaprior
updated 18 months ago by
Michael Love
41k • written 5.4 years ago by
Mariaxi
• 0
0
votes
7
replies
1.3k
views
Highly differentially expressed genes not found with DESeq2 and default betaPrior
deseq2
betaprior
updated 7.7 years ago by
thomas.siegmund
• 0 • written 7.7 years ago by
akaever
▴ 30
2
votes
1
reply
1.3k
views
LRT test with or without betaPrior
deseq2
LRT
betaprior
updated 7.6 years ago by
Michael Love
41k • written 7.6 years ago by
laianavarromartin
▴ 20
1
vote
3
replies
1.1k
views
DESEq2: the use of interaction term and grouping with different betaPrior arguments in older version of DESEq2
deseq2
interaction term
multiple groups
betaprior
updated 6.0 years ago by
Michael Love
41k • written 6.0 years ago by
tarun2
• 0
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Answer: How to save the DEXSeq results
by
Michael Love
41k
If you look at the output here: https://bioconductor.org/packages/release/bioc/vignettes/DEXSeq/inst/doc/DEXSeq.html#4_Testing_for_differe…
Answer: Method to find pathways different between 2 groups
by
Robert Castelo
★ 3.3k
Hi, regarding how could you combine the result from each tool, one option is using a so-called "ensembl method", for instance, the package …
Answer: Couldn't connect to server while using "pathways"
by
James W. MacDonald
65k
As ATpoint already noted, you should proceed from the assumption that your audience knows nothing about what you are doing, and provide eno…
Answer: Trim/Filter out-of-bounds GRanges
by
Michael Love
41k
https://support.bioconductor.org/p/73432/#73448
Comment: Couldn't connect to server while using "pathways"
by
Michael Love
41k
You've put the tag "DESeq2" which results in an email to the maintainer, me, that I should respond to a post on the support site. Can you …
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: Method to find pathways different between 2 groups
Comment: Trying to use enrichGO
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Handling multiple differential expression comparisons
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