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significance
•
reset
1
vote
8
replies
5.1k
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DESeq2: betaPrior changes significance dramatically
deseq2
betaPrior
shrinkage
significance
7.6 years ago
brynedal
▴ 40
1
vote
1
reply
2.5k
views
Beta Value Analysis - DNA Methylation Dataset
dna methylation
illimina 450k methylation
beta
M
significance
updated 8.2 years ago by
James W. MacDonald
68k • written 8.2 years ago by
skids121
• 0
3
votes
3
replies
1.4k
views
limma decideTests: only p-value less than (but not equal to) alpha are flagged as significant
limma
edger
significance
rnaseq
updated 8.8 years ago by
Gordon Smyth
53k • written 8.8 years ago by
roberto.spreafico
▴ 20
1
vote
4
replies
1.8k
views
comparing transcripts expression between conditions
salmon
transcripts
significance
counts
9.4 years ago
Assa Yeroslaviz
★ 1.5k
0
votes
3
replies
3.2k
views
Wald vs LRT: different number of significant genes when testing the same coefficient
deseq2
wald
lrt
genes
significance
updated 9.5 years ago by
Michael Love
43k • written 9.5 years ago by
aziza
▴ 20
0
votes
0
replies
1.1k
views
cell analysis- significance output perturbed in shiny environment
cellcode
significance
9.6 years ago
christopher.clarskon15
▴ 20
6 results • Page
1 of 1
Recent ...
Replies
Answer: problem reading bam files into nucleR
by
James W. MacDonald
68k
The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…
Answer: Question about DESeq2 Design for Paired Treatment Study
by
ATpoint
★ 5.0k
It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …
Comment: problem reading bam files into nucleR
by
efoss
▴ 10
I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…
Answer: two questions about limma
by
Gordon Smyth
53k
Answered here: https://support.bioconductor.org/p/16318/
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
by
Ahmed Salah
• 0
Thank you very much! will take that into consideration
Votes
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
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