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bayseq
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0
votes
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495
views
Help with baySeq paired data analysis - error running 'getLikelihoods'
baySeq
2.0 years ago
sharvari gujja
▴ 40
0
votes
1
reply
2.5k
views
PCA analysis with 2 biological replicates
bayseq
PCA
5.1 years ago
bsad
• 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
5
replies
1.5k
views
baySeq pairedData error
bayseq
updated 8.1 years ago by
Thomas J Hardcastle
▴ 180 • written 8.1 years ago by
amab424
• 0
0
votes
0
replies
1.3k
views
baySeq missing data
bayseq
missing data
9.0 years ago
k.w.lau
• 0
1
vote
5
replies
2.9k
views
baySeq issues and questions
bayseq
metagenomics
9.5 years ago • updated 9.3 years ago
lordbleys
• 0
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 9.6 years ago by
Will Landau
• 0
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 10.1 years ago by
Koji Kadota
▴ 10 • written 10.1 years ago by
Gordon Smyth
50k
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
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
0
replies
1.1k
views
Paired Data Analysis in baySeq package
baySeq
baySeq
10.2 years ago
zhao shilin
▴ 60
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
2.8k
views
multi-mapped reads: Cufflinks + baySeq? edgeR?
GO
baySeq
GO
baySeq
11.2 years ago
Guest User
★ 13k
0
votes
2
replies
1.2k
views
weired bayseq results
baySeq
baySeq
11.5 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
0
replies
855
views
baySeq and samplesize factor
baySeq
baySeq
11.6 years ago
Fatemehsadat Seyednasrollah
▴ 260
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
3
replies
1.2k
views
Help with plot comparison
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
12.3 years ago
Tina Asante Boahene
▴ 100
0
votes
0
replies
1.2k
views
FDR (False Discovery Rate)
baySeq
DEGseq
baySeq
DEGseq
12.3 years ago
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
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
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
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
2.2k
views
bayseq and edgeR for multi groups comparisons
edgeR
baySeq
edgeR
baySeq
12.5 years ago
Gordon Smyth
50k
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
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
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
28 results • Page
1 of 1
Recent ...
Replies
Comment: Cannot connect to ExperimentHub server
by
Jiayu
• 0
Many thanks and it also resolved the same issue for me!
Comment: Help with running egsea()
by
Chris
• 0
I tried egsea.ma and got this error: gsa = egsea.ma(numeric_matrix, vector_group, probe_annotation, contrasts = contrast_matrix, gs.an…
Comment: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
by
angelathuynh5
• 0
Thank you for your response. To clarify, the process of making a heatmap performs rowscaling so it takes the value - (mean/std). And to res…
Comment: Method to find pathways different between 2 groups
by
Gordon Smyth
50k
sigPathway is another method that does not account for inter-gene correlation and which gives inflated significance, as we showed in our 20…
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu
by
James W. MacDonald
65k
I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?
Votes
Answer: Cannot connect to ExperimentHub server
Answer: confused with tximport counts abundance using salmon input
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu
Answer: Extremely small p-values using Limma for proteomic data
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Gyan Prakash Mishra
▴ 10
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to
Gordon Smyth
50k
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to
WouterDeCoster
▴ 130
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Michael Love
42k
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Malcolm Cook
★ 1.6k
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