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bayseq
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1
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5
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2.9k
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baySeq issues and questions
bayseq
metagenomics
9.4 years ago • updated 9.2 years ago
lordbleys
• 0
0
votes
5
replies
1.4k
views
baySeq pairedData error
bayseq
updated 8.0 years ago by
Thomas J Hardcastle
▴ 180 • written 8.0 years ago by
amab424
• 0
0
votes
3
replies
1.2k
views
Help with plot comparison
baySeq
DEGseq
baySeq
DEGseq
12.1 years ago
Tina Asante Boahene
▴ 100
0
votes
2
replies
2.8k
views
multi-mapped reads: Cufflinks + baySeq? edgeR?
GO
baySeq
GO
baySeq
11.1 years ago
Guest User
★ 13k
0
votes
2
replies
1.0k
views
Bayseq vignette is missing
baySeq
baySeq
updated 13.9 years ago by
Chao-Jen Wong
▴ 580 • written 13.9 years ago by
Naomi Altman
★ 6.0k
0
votes
1
reply
2.2k
views
TMM and calcNormFactors: Normalization in baySeq to match edgeR and DESeq
Normalization
Bayesian
edgeR
baySeq
DESeq
Normalization
Bayesian
edgeR
baySeq
DESeq
updated 12.4 years ago by
Smith, Hilary A
▴ 40 • written 12.4 years ago by
Gordon Smyth
50k
0
votes
3
replies
1.3k
views
Help With RNA-seq
Normalization
edgeR
baySeq
Normalization
edgeR
baySeq
updated 12.2 years ago by
Valerie Obenchain
★ 6.8k • written 12.2 years ago by
Tina Asante Boahene
▴ 100
0
votes
2
replies
1.2k
views
Help With RNA-seq
Annotation
Normalization
Kidney
edgeR
baySeq
Annotation
Normalization
Kidney
edgeR
baySeq
12.2 years ago
Valerie Obenchain
★ 6.8k
0
votes
1
reply
4.1k
views
RNA-seq analysis and two-way ANOVAs
edgeR
baySeq
DEGseq
DESeq
DEXSeq
edgeR
baySeq
DEGseq
DESeq
DEXSeq
updated 11.7 years ago by
Gordon Smyth
50k • written 11.7 years ago by
Elena Sorokin
▴ 150
0
votes
2
replies
1.2k
views
weired bayseq results
baySeq
baySeq
11.4 years ago
Fatemehsadat Seyednasrollah
▴ 260
0
votes
1
reply
1.6k
views
TCC::ERROR: Need the design matrix for GLM
DifferentialExpression
Normalization
Cancer
edgeR
baySeq
DESeq
EBSeq
TCC
Normalization
updated 10.0 years ago by
Koji Kadota
▴ 10 • written 10.0 years ago by
Gordon Smyth
50k
0
votes
1
reply
1.1k
views
bayseq pair data
baySeq
baySeq
updated 10.6 years ago by
Thomas J Hardcastle
▴ 180 • written 10.6 years ago by
Guest User
★ 13k
0
votes
2
replies
1.5k
views
Fwd: Paired Data Analysis in baySeq package
baySeq
baySeq
updated 10.2 years ago by
zhao shilin
▴ 60 • written 10.2 years ago by
Thomas J Hardcastle
▴ 180
0
votes
1
reply
1.7k
views
TCC::ERROR: Need the design matrix for GLM.
DifferentialExpression
Normalization
Cancer
edgeR
baySeq
DESeq
EBSeq
TCC
Normalization
updated 10.0 years ago by
Jianqiang SUN
▴ 10 • written 10.0 years ago by
Pankaj Agarwal
▴ 100
1
vote
2
replies
1.1k
views
more complicated hypotheses than differential expression (with baySeq or a similar package)
bayseq
hypotheses
updated 9.5 years ago by
Gordon Smyth
50k • written 9.5 years ago by
Will Landau
• 0
2
votes
2
replies
1.1k
views
Setting up Experiment Design in baySeq
bayseq
updated 7.5 years ago by
Thomas J Hardcastle
▴ 180 • written 7.5 years ago by
adityabandla
▴ 10
0
votes
0
replies
1.3k
views
baySeq issues
edgeR
baySeq
edgeR
baySeq
12.7 years ago
Iain Gallagher
▴ 930
0
votes
0
replies
1.1k
views
TMM and calcNormFactors: Normalization in baySeq to match, edgeR and DESeq (Smith, Hilary A)
Normalization
edgeR
baySeq
DESeq
Normalization
edgeR
baySeq
DESeq
12.4 years ago
Thomas J Hardcastle
▴ 180
0
votes
0
replies
1.3k
views
baySeq missing data
bayseq
missing data
9.0 years ago
k.w.lau
• 0
0
votes
0
replies
1.1k
views
Paired Data Analysis in baySeq package
baySeq
baySeq
10.2 years ago
zhao shilin
▴ 60
0
votes
0
replies
1.1k
views
RNA-Seq with multiple factors [was Informations about DESeq package]
RNASeq
edgeR
baySeq
DESeq
RNASeq
edgeR
baySeq
DESeq
13.0 years ago
Gordon Smyth
50k
0
votes
0
replies
1.2k
views
FDR (False Discovery Rate)
baySeq
DEGseq
baySeq
DEGseq
12.2 years ago
Tina Asante Boahene
▴ 100
0
votes
0
replies
1.1k
views
DEGseq help
baySeq
DEGseq
baySeq
DEGseq
12.2 years ago
Tina Asante Boahene
▴ 100
0
votes
1
reply
490
views
Help with baySeq paired data analysis - error running 'getLikelihoods'
baySeq
24 months ago
sharvari gujja
▴ 40
0
votes
0
replies
845
views
baySeq and samplesize factor
baySeq
baySeq
11.5 years ago
Fatemehsadat Seyednasrollah
▴ 260
0
votes
0
replies
826
views
Bioconductor Digest, Vol 116, Issue 8
baySeq
baySeq
11.5 years ago
Thomas J Hardcastle
▴ 180
0
votes
1
reply
2.4k
views
PCA analysis with 2 biological replicates
bayseq
PCA
5.1 years ago
bsad
• 0
0
votes
0
replies
2.2k
views
bayseq and edgeR for multi groups comparisons
edgeR
baySeq
edgeR
baySeq
12.4 years ago
Gordon Smyth
50k
28 results • Page
1 of 1
Recent ...
Replies
Comment: DESeq filtering specific to contrasts
by
Michael Love
41k
It will likely not filter it out, but really the per-dataset details would affect the results.
Comment: DESeq filtering specific to contrasts
by
Carlin95
• 0
Thanks for clarifying. Could I ask maybe one more thing for my sanity? Let's say you had a multi-factor experiment with contrasts including…
Comment: FilterByExpr low counts with small sample size
by
Jonathan
▴ 10
Thank you for your answer; However, I have some follow-up questions. Following up in In your [1-2-3 article][1], you say that > "... the…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
by
Seyram M.
• 0
Thank you very much for your reply! I will do so. Kind regards, Seyram
Comment: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
by
isaac.vock
• 0
Thank you for your response. I can confirm that setting `-t exon` and/or removing `-s 1` and adding `-O` has no impact on the number of suc…
Votes
Install/Switch between multiple versions of R, Rstudio, and Bioconductor
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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