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bayseq
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490
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Help with baySeq paired data analysis - error running 'getLikelihoods'
baySeq
24 months ago
sharvari gujja
▴ 40
0
votes
1
reply
2.4k
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 7.5 years ago by
Thomas J Hardcastle
▴ 180 • written 7.5 years ago by
adityabandla
▴ 10
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
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
9.4 years ago • updated 9.2 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 9.5 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 10.0 years ago by
Koji Kadota
▴ 10 • written 10.0 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 10.0 years ago by
Jianqiang SUN
▴ 10 • written 10.0 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
11.1 years ago
Guest User
★ 13k
0
votes
2
replies
1.2k
views
weired bayseq results
baySeq
baySeq
11.4 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
0
replies
844
views
baySeq and samplesize factor
baySeq
baySeq
11.5 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
12.1 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
0
replies
1.1k
views
FDR (False Discovery Rate)
baySeq
DEGseq
baySeq
DEGseq
12.2 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
12.2 years ago
Valerie Obenchain
★ 6.8k
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
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
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
2.2k
views
bayseq and edgeR for multi groups comparisons
edgeR
baySeq
edgeR
baySeq
12.4 years ago
Gordon Smyth
50k
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
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: Light difference when using coef vs omit a group when compare 3 groups.
by
Chris
• 0
Hi Gordon, thank you so much for further guidance! I discussed this issue with doctor know about Alzheimer and they don't expect significan…
Comment: Single-Cell Data Simulation from Bulk RNA-seq
by
wichaidi
• 0
Hi - I am wondering what you decided to do. I am currently in a similar condition where I need to create a toy scRNAseq data from bulk.
Comment: Methylation Analysis experiment design using Limma
by
hortense96
• 0
Hi, Thank you very much for your answer. It's true that I only used 6 samples for this analysis, which is consistent with your explanation…
Comment: Error using champ.import
by
shilpa
• 0
I'm having same issues too. Did anyone manage to resolve it?
Answer: Methylation Analysis experiment design using Limma
by
Gordon Smyth
50k
You don't explain how many samples you have (columns of data), but the warning message shown in your post would arise if there are in fact …
Votes
Answer: How many of my genes from my gene list are in each KEGG pathway?
Comment: Light difference when using coef vs omit a group when compare 3 groups.
DESeq2 variance transformation error and plot dispersion Estimate
A: DESeq2 variance transformation error and plot dispersion Estimate
ensembl to hgnc symbols creates duplicates
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