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bayseq
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0
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614
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Help with baySeq paired data analysis - error running 'getLikelihoods'
baySeq
2.6 years ago
sharvari gujja
▴ 40
0
votes
1
reply
2.9k
views
PCA analysis with 2 biological replicates
bayseq
PCA
5.7 years ago
bsad
• 0
2
votes
2
replies
1.3k
views
Setting up Experiment Design in baySeq
bayseq
updated 8.1 years ago by
Thomas J Hardcastle
▴ 180 • written 8.1 years ago by
adityabandla
▴ 10
0
votes
5
replies
1.7k
views
baySeq pairedData error
bayseq
updated 8.6 years ago by
Thomas J Hardcastle
▴ 180 • written 8.6 years ago by
amab424
• 0
0
votes
0
replies
1.5k
views
baySeq missing data
bayseq
missing data
9.6 years ago
k.w.lau
• 0
1
vote
5
replies
3.1k
views
baySeq issues and questions
bayseq
metagenomics
10.0 years ago • updated 9.8 years ago
lordbleys
• 0
1
vote
2
replies
1.2k
views
more complicated hypotheses than differential expression (with baySeq or a similar package)
bayseq
hypotheses
updated 10.1 years ago by
Gordon Smyth
51k • written 10.1 years ago by
Will Landau
• 0
0
votes
1
reply
1.8k
views
TCC::ERROR: Need the design matrix for GLM
DifferentialExpression
Normalization
Cancer
edgeR
baySeq
DESeq
EBSeq
TCC
Normalization
updated 10.6 years ago by
Koji Kadota
▴ 10 • written 10.6 years ago by
Gordon Smyth
51k
0
votes
1
reply
2.0k
views
TCC::ERROR: Need the design matrix for GLM.
DifferentialExpression
Normalization
Cancer
edgeR
baySeq
DESeq
EBSeq
TCC
Normalization
updated 10.6 years ago by
Jianqiang SUN
▴ 10 • written 10.6 years ago by
Pankaj Agarwal
▴ 100
0
votes
2
replies
1.6k
views
Fwd: Paired Data Analysis in baySeq package
baySeq
baySeq
updated 10.8 years ago by
zhao shilin
▴ 60 • written 10.8 years ago by
Thomas J Hardcastle
▴ 180
0
votes
0
replies
1.2k
views
Paired Data Analysis in baySeq package
baySeq
baySeq
10.8 years ago
zhao shilin
▴ 60
0
votes
1
reply
1.3k
views
bayseq pair data
baySeq
baySeq
updated 11.2 years ago by
Thomas J Hardcastle
▴ 180 • written 11.2 years ago by
Guest User
★ 13k
0
votes
2
replies
3.0k
views
multi-mapped reads: Cufflinks + baySeq? edgeR?
GO
baySeq
GO
baySeq
11.7 years ago
Guest User
★ 13k
0
votes
2
replies
1.3k
views
weired bayseq results
baySeq
baySeq
12.0 years ago
Fatemehsadat Seyednasrollah
▴ 260
0
votes
0
replies
930
views
Bioconductor Digest, Vol 116, Issue 8
baySeq
baySeq
12.1 years ago
Thomas J Hardcastle
▴ 180
0
votes
0
replies
963
views
baySeq and samplesize factor
baySeq
baySeq
12.1 years ago
Fatemehsadat Seyednasrollah
▴ 260
0
votes
1
reply
4.3k
views
RNA-seq analysis and two-way ANOVAs
edgeR
baySeq
DEGseq
DESeq
DEXSeq
edgeR
baySeq
DEGseq
DESeq
DEXSeq
updated 12.2 years ago by
Gordon Smyth
51k • written 12.3 years ago by
Elena Sorokin
▴ 160
0
votes
3
replies
1.3k
views
Help with plot comparison
baySeq
DEGseq
baySeq
DEGseq
12.7 years ago
Tina Asante Boahene
▴ 100
0
votes
0
replies
1.2k
views
DEGseq help
baySeq
DEGseq
baySeq
DEGseq
12.8 years ago
Tina Asante Boahene
▴ 100
0
votes
0
replies
1.3k
views
FDR (False Discovery Rate)
baySeq
DEGseq
baySeq
DEGseq
12.8 years ago
Tina Asante Boahene
▴ 100
0
votes
2
replies
1.4k
views
Help With RNA-seq
Annotation
Normalization
Kidney
edgeR
baySeq
Annotation
Normalization
Kidney
edgeR
baySeq
12.8 years ago
Valerie Obenchain
★ 6.8k
0
votes
3
replies
1.5k
views
Help With RNA-seq
Normalization
edgeR
baySeq
Normalization
edgeR
baySeq
updated 12.8 years ago by
Valerie Obenchain
★ 6.8k • written 12.8 years ago by
Tina Asante Boahene
▴ 100
0
votes
1
reply
2.4k
views
TMM and calcNormFactors: Normalization in baySeq to match edgeR and DESeq
Normalization
Bayesian
edgeR
baySeq
DESeq
Normalization
Bayesian
edgeR
baySeq
DESeq
updated 13.0 years ago by
Smith, Hilary A
▴ 40 • written 13.0 years ago by
Gordon Smyth
51k
0
votes
0
replies
1.2k
views
TMM and calcNormFactors: Normalization in baySeq to match, edgeR and DESeq (Smith, Hilary A)
Normalization
edgeR
baySeq
DESeq
Normalization
edgeR
baySeq
DESeq
13.0 years ago
Thomas J Hardcastle
▴ 180
0
votes
0
replies
2.4k
views
bayseq and edgeR for multi groups comparisons
edgeR
baySeq
edgeR
baySeq
13.0 years ago
Gordon Smyth
51k
0
votes
0
replies
1.4k
views
baySeq issues
edgeR
baySeq
edgeR
baySeq
13.3 years ago
Iain Gallagher
▴ 930
0
votes
0
replies
1.3k
views
RNA-Seq with multiple factors [was Informations about DESeq package]
RNASeq
edgeR
baySeq
DESeq
RNASeq
edgeR
baySeq
DESeq
13.6 years ago
Gordon Smyth
51k
0
votes
2
replies
1.2k
views
Bayseq vignette is missing
baySeq
baySeq
updated 14.5 years ago by
Chao-Jen Wong
▴ 580 • written 14.5 years ago by
Naomi Altman
★ 6.0k
28 results • Page
1 of 1
Recent ...
Replies
Comment: Differene between the Wald and LRT test for time-series gene expression data
by
Denise
• 0
This makes a lot of sense, thank you very much!
Comment: Downloading Metagenomic Data with Higher Taxonomic Units
by
elozanoe
• 0
Hi! I'm facing the same problem. Is there any easy way to output relative abundances of higher taxonomic units (up to kingdom), similar to…
Comment: Is it recommended to analyze different tissues together when using edgeR
by
Gordon Smyth
51k
Just plot the samples with plotMDS(). Alternatively you would use `voomLmFit()` with `sample.weights=TRUE` or `var.group=tissue`. In princ…
Comment: Handling Epic Array Data
by
Melisa Tecik
• 0
Thanks a lot for the help. You saved my day
Answer: Differene between the Wald and LRT test for time-series gene expression data
by
James W. MacDonald
67k
The advantage to using the LRT is that it's an omnibus test that tells you if there are changes at any time point. If you have lots of time…
Votes
A: correcting the batch effects in Limma and SVA
A: Using of limma moderated t-test with "corrected" expression matrix resulting fr
A: Using of limma moderated t-test with "corrected" expression matrix resulting fr
Answer: Differene between the Wald and LRT test for time-series gene expression data
Answer: Using voom-transformed counts for unsupervised analyses (PCA, Random Forest, Ela
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Talip Zengin
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Gordon Smyth
51k
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James W. MacDonald
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