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bayseq
•
reset
1
vote
5
replies
2.9k
views
baySeq issues and questions
bayseq
metagenomics
9.5 years ago • updated 9.3 years ago
lordbleys
• 0
0
votes
5
replies
1.5k
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
12.2 years ago
Tina Asante Boahene
▴ 100
0
votes
2
replies
2.8k
views
multi-mapped reads: Cufflinks + baySeq? edgeR?
GO
baySeq
GO
baySeq
11.2 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 12.5 years ago by
Smith, Hilary A
▴ 40 • written 12.5 years ago by
Gordon Smyth
50k
0
votes
3
replies
1.4k
views
Help With RNA-seq
Normalization
edgeR
baySeq
Normalization
edgeR
baySeq
updated 12.3 years ago by
Valerie Obenchain
★ 6.8k • written 12.3 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
12.3 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
11.5 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 10.1 years ago by
Jianqiang SUN
▴ 10 • written 10.1 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 7.6 years ago by
Thomas J Hardcastle
▴ 180 • written 7.6 years ago by
adityabandla
▴ 10
0
votes
0
replies
1.3k
views
baySeq issues
edgeR
baySeq
edgeR
baySeq
12.8 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
12.5 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
495
views
Help with baySeq paired data analysis - error running 'getLikelihoods'
baySeq
2.0 years ago
sharvari gujja
▴ 40
0
votes
0
replies
853
views
baySeq and samplesize factor
baySeq
baySeq
11.6 years ago
Fatemehsadat Seyednasrollah
▴ 260
0
votes
0
replies
833
views
Bioconductor Digest, Vol 116, Issue 8
baySeq
baySeq
11.6 years ago
Thomas J Hardcastle
▴ 180
0
votes
1
reply
2.5k
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
12.5 years ago
Gordon Smyth
50k
28 results • Page
1 of 1
Recent ...
Replies
Comment: Deseq2 and Normalization of RNA sequencing data
by
kcarey
• 0
Noise in terms of expression...to make sure that the information reported is not due to artifacts and actually expression. When I had FPKM …
Answer: NEED FOR NESSASORY HELP
by
Gordon Smyth
50k
Is this quesion related to your earlier question? https://support.bioconductor.org/p/9157127/ If you've already done an edgeR analysis, yo…
Answer: Gene-by-sample covariates in limma
by
Gordon Smyth
50k
Your first method would be valid if, instead of taking ratios, you instead used the differences between the log-transformed 13C and 12C int…
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
by
Gordon Smyth
50k
You have discovered something that I have pointed out many times on this forum. fgsea does not implement the classic GSEA method published …
Comment: Once again a "Model matrix not full rank"
by
James W. MacDonald
65k
In that case both time and treatment are identical things, so choose one and go with it.
Votes
Bioconductor 3.19 is Released!
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
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