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significance
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reset
1
vote
8
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5.2k
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DESeq2: betaPrior changes significance dramatically
deseq2
betaPrior
shrinkage
significance
7.7 years ago
brynedal
▴ 40
1
vote
1
reply
2.6k
views
Beta Value Analysis - DNA Methylation Dataset
dna methylation
illimina 450k methylation
beta
M
significance
updated 8.3 years ago by
James W. MacDonald
68k • written 8.3 years ago by
skids121
• 0
2
votes
3
replies
1.5k
views
limma decideTests: only p-value less than (but not equal to) alpha are flagged as significant
limma
edger
significance
rnaseq
updated 8.9 years ago by
Gordon Smyth
53k • written 8.9 years ago by
roberto.spreafico
▴ 10
1
vote
4
replies
1.9k
views
comparing transcripts expression between conditions
salmon
transcripts
significance
counts
9.5 years ago
Assa Yeroslaviz
★ 1.5k
0
votes
3
replies
3.3k
views
Wald vs LRT: different number of significant genes when testing the same coefficient
deseq2
wald
lrt
genes
significance
updated 9.6 years ago by
Michael Love
43k • written 9.6 years ago by
aziza
▴ 20
0
votes
0
replies
1.2k
views
cell analysis- significance output perturbed in shiny environment
cellcode
significance
9.7 years ago
christopher.clarskon15
▴ 20
6 results • Page
1 of 1
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Replies
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
chp265
• 0
Good point, I hadn't considered the fact quantitative `time` implies a (logit-)linear response *to* time. You're correct that I haven't exp…
Comment: Bile acid analysis with limpa
by
ATpoint
★ 5.0k
Wilcox/Mann-Whitney-U cannot work because it is bound to sample size even when all of group X are lower than all of group Y. At 4 vs 3 the …
Comment: chemmineOB install help
by
Jeremy
• 0
I could install ChemmineOB on my MacBook Pro M1 Max using this procedure **1. Install open-babel and eigen using homebrew and create a cus…
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
Gordon Smyth
53k
The design matrix that I described above is completely general. I imagine that it would be possible to use the same approach to generate fu…
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
chp265
• 0
Cool, glad to hear I wasn't missing some functionality in DESeq2. I don't know that much about the differences between DESeq2 vs edgeR; my …
Votes
A: DESeq2: Is it possible to convert read counts to expression values via TPM and r
A: Filtering read counts matrix: how to deal with duplicated gene symbols, differen
Comment: limpa analysis advice
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
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