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bayseq
•
reset
0
votes
1
reply
68
views
Help with baySeq paired data analysis - error running 'getLikelihoods'
baySeq
20 days ago
sharvari gujja
▴ 30
0
votes
1
reply
1.0k
views
PCA analysis with 2 biological replicates
bayseq
PCA
3.2 years ago
bsad
• 0
2
votes
2
replies
700
views
Setting up Experiment Design in baySeq
bayseq
updated 5.6 years ago by
Thomas J Hardcastle
▴ 180 • written 5.6 years ago by
adityabandla
▴ 10
0
votes
5
replies
891
views
baySeq pairedData error
bayseq
updated 6.1 years ago by
Thomas J Hardcastle
▴ 180 • written 6.1 years ago by
amab424
• 0
0
votes
0
replies
955
views
baySeq missing data
bayseq
missing data
7.0 years ago
k.w.lau
• 0
1
vote
5
replies
2.1k
views
baySeq issues and questions
bayseq
metagenomics
7.5 years ago • updated 7.3 years ago
lordbleys
• 0
1
vote
2
replies
727
views
more complicated hypotheses than differential expression (with baySeq or a similar package)
bayseq
hypotheses
updated 7.6 years ago by
Gordon Smyth
45k • written 7.6 years ago by
Will Landau
• 0
0
votes
1
reply
1.1k
views
TCC::ERROR: Need the design matrix for GLM
DifferentialExpression
Normalization
Cancer
edgeR
baySeq
DESeq
EBSeq
TCC
Normalization
updated 8.1 years ago by
Koji Kadota
▴ 10 • written 8.1 years ago by
Gordon Smyth
45k
0
votes
1
reply
1.2k
views
TCC::ERROR: Need the design matrix for GLM.
DifferentialExpression
Normalization
Cancer
edgeR
baySeq
DESeq
EBSeq
TCC
Normalization
updated 8.1 years ago by
Jianqiang SUN
▴ 10 • written 8.1 years ago by
Pankaj Agarwal
▴ 100
0
votes
2
replies
1.1k
views
Fwd: Paired Data Analysis in baySeq package
baySeq
baySeq
updated 8.3 years ago by
zhao shilin
▴ 60 • written 8.3 years ago by
Thomas J Hardcastle
▴ 180
0
votes
0
replies
749
views
Paired Data Analysis in baySeq package
baySeq
baySeq
8.3 years ago
zhao shilin
▴ 60
0
votes
1
reply
784
views
bayseq pair data
baySeq
baySeq
updated 8.7 years ago by
Thomas J Hardcastle
▴ 180 • written 8.7 years ago by
Guest User
★ 12k
0
votes
2
replies
2.3k
views
multi-mapped reads: Cufflinks + baySeq? edgeR?
GO
baySeq
GO
baySeq
9.2 years ago
Guest User
★ 12k
0
votes
2
replies
853
views
weired bayseq results
baySeq
baySeq
9.5 years ago
Fatemehsadat Seyednasrollah
▴ 260
0
votes
0
replies
546
views
Bioconductor Digest, Vol 116, Issue 8
baySeq
baySeq
9.6 years ago
Thomas J Hardcastle
▴ 180
0
votes
0
replies
563
views
baySeq and samplesize factor
baySeq
baySeq
9.6 years ago
Fatemehsadat Seyednasrollah
▴ 260
0
votes
1
reply
3.2k
views
RNA-seq analysis and two-way ANOVAs
edgeR
baySeq
DEGseq
DESeq
DEXSeq
edgeR
baySeq
DEGseq
DESeq
DEXSeq
updated 9.7 years ago by
Gordon Smyth
45k • written 9.7 years ago by
Elena Sorokin
▴ 150
0
votes
3
replies
707
views
Help with plot comparison
baySeq
DEGseq
baySeq
DEGseq
10.2 years ago
Tina Asante Boahene
▴ 100
0
votes
0
replies
662
views
DEGseq help
baySeq
DEGseq
baySeq
DEGseq
10.3 years ago
Tina Asante Boahene
▴ 100
0
votes
0
replies
709
views
FDR (False Discovery Rate)
baySeq
DEGseq
baySeq
DEGseq
10.3 years ago
Tina Asante Boahene
▴ 100
0
votes
2
replies
895
views
Help With RNA-seq
Annotation
Normalization
Kidney
edgeR
baySeq
Annotation
Normalization
Kidney
edgeR
baySeq
10.3 years ago
Valerie Obenchain
★ 6.7k
0
votes
3
replies
947
views
Help With RNA-seq
Normalization
edgeR
baySeq
Normalization
edgeR
baySeq
updated 10.3 years ago by
Valerie Obenchain
★ 6.7k • written 10.3 years ago by
Tina Asante Boahene
▴ 100
0
votes
1
reply
1.6k
views
TMM and calcNormFactors: Normalization in baySeq to match edgeR and DESeq
Normalization
Bayesian
edgeR
baySeq
DESeq
Normalization
Bayesian
edgeR
baySeq
DESeq
updated 10.5 years ago by
Smith, Hilary A
▴ 40 • written 10.5 years ago by
Gordon Smyth
45k
0
votes
0
replies
816
views
TMM and calcNormFactors: Normalization in baySeq to match, edgeR and DESeq (Smith, Hilary A)
Normalization
edgeR
baySeq
DESeq
Normalization
edgeR
baySeq
DESeq
10.5 years ago
Thomas J Hardcastle
▴ 180
0
votes
0
replies
1.9k
views
bayseq and edgeR for multi groups comparisons
edgeR
baySeq
edgeR
baySeq
10.5 years ago
Gordon Smyth
45k
0
votes
0
replies
981
views
baySeq issues
edgeR
baySeq
edgeR
baySeq
10.8 years ago
Iain Gallagher
▴ 930
0
votes
0
replies
796
views
RNA-Seq with multiple factors [was Informations about DESeq package]
RNASeq
edgeR
baySeq
DESeq
RNASeq
edgeR
baySeq
DESeq
11.1 years ago
Gordon Smyth
45k
0
votes
2
replies
621
views
Bayseq vignette is missing
baySeq
baySeq
updated 11.9 years ago by
Chao-Jen Wong
▴ 580 • written 11.9 years ago by
Naomi Altman
★ 6.0k
28 results • Page
1 of 1
Recent ...
Replies
Comment: Methods for removing unexpressed probes of Human Transcriptome Array HTA 2.0
by
Yang Shi
• 0
Perfect answer! This questions troubled me for a long time. Thanks again and for your quick and detailed reply.
Comment: HTSeq Counts no longer available
by
swbarnes2
★ 1.0k
STAR's output was intended to mimic HTseq-counts.
Answer: Methods for removing unexpressed probes of Human Transcriptome Array HTA 2.0
by
James W. MacDonald
59k
In the previous post I noted that `paCalls` doesn't exist for this array, and that is still true today. And there are no methods similar to…
Comment: DiffBind GreyListChIP error: Error: BiocParallel errors
by
Rory Stark
★ 4.4k
Could you let me know the versions? Output of `sessionInfo()`.
Comment: Appropriate pre-processing pipeline for Human Transcriptome Array HTA 2.0 with o
by
Yang Shi
• 0
okay sir, the new post is here (https://support.bioconductor.org/p/9144266/). Looking forward to your reply.
Votes
Answer: Use MulticoreParam under BatchtoolsParam
Answer: Variance explained (coefficient of determination) in edgeR
HTSeq Counts no longer available
Comment: Problem converting transcript to genomic coordinates with Annotation Hub
Comment: Separate exogenous from endogenous transcripts using Salmon RNAseq DTU
Awards
• All
Popular Question
to
Johannes Rainer
★ 1.9k
Popular Question
to
Gordon Smyth
45k
Popular Question
to
Julie Zhu
★ 4.3k
Scholar
to
Hervé Pagès
15k
Commentator
to
James W. MacDonald
59k
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