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baySeq
•
reset
0
votes
1
reply
510
views
Help with baySeq paired data analysis - error running 'getLikelihoods'
baySeq
2.1 years ago
sharvari gujja
▴ 40
0
votes
1
reply
2.5k
views
PCA analysis with 2 biological replicates
bayseq
PCA
5.2 years ago
bsad
• 0
2
votes
2
replies
1.1k
views
Setting up Experiment Design in baySeq
bayseq
updated 7.7 years ago by
Thomas J Hardcastle
▴ 180 • written 7.7 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
9.1 years ago
k.w.lau
• 0
1
vote
5
replies
2.9k
views
baySeq issues and questions
bayseq
metagenomics
9.6 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 9.6 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
1.8k
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 10.3 years ago by
zhao shilin
▴ 60 • written 10.3 years ago by
Thomas J Hardcastle
▴ 180
0
votes
0
replies
1.1k
views
Paired Data Analysis in baySeq package
baySeq
baySeq
10.3 years ago
zhao shilin
▴ 60
0
votes
1
reply
1.1k
views
bayseq pair data
baySeq
baySeq
updated 10.7 years ago by
Thomas J Hardcastle
▴ 180 • written 10.7 years ago by
Guest User
★ 13k
0
votes
2
replies
2.9k
views
multi-mapped reads: Cufflinks + baySeq? edgeR?
GO
baySeq
GO
baySeq
11.3 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
841
views
Bioconductor Digest, Vol 116, Issue 8
baySeq
baySeq
11.7 years ago
Thomas J Hardcastle
▴ 180
0
votes
0
replies
864
views
baySeq and samplesize factor
baySeq
baySeq
11.7 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 11.8 years ago by
Gordon Smyth
50k • written 11.8 years ago by
Elena Sorokin
▴ 150
0
votes
3
replies
1.2k
views
Help with plot comparison
baySeq
DEGseq
baySeq
DEGseq
12.3 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
1.3k
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 12.4 years ago by
Valerie Obenchain
★ 6.8k • written 12.4 years ago by
Tina Asante Boahene
▴ 100
0
votes
1
reply
2.3k
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
2.3k
views
bayseq and edgeR for multi groups comparisons
edgeR
baySeq
edgeR
baySeq
12.5 years ago
Gordon Smyth
50k
0
votes
0
replies
1.4k
views
baySeq issues
edgeR
baySeq
edgeR
baySeq
12.8 years ago
Iain Gallagher
▴ 930
0
votes
0
replies
1.2k
views
RNA-Seq with multiple factors [was Informations about DESeq package]
RNASeq
edgeR
baySeq
DESeq
RNASeq
edgeR
baySeq
DESeq
13.1 years ago
Gordon Smyth
50k
0
votes
2
replies
1.1k
views
Bayseq vignette is missing
baySeq
baySeq
updated 14.0 years ago by
Chao-Jen Wong
▴ 580 • written 14.0 years ago by
Naomi Altman
★ 6.0k
28 results • Page
1 of 1
Recent ...
Replies
Comment: How to compare subset of samples from VCF files
by
Gordon Smyth
50k
Welcome to Bioconductor support. Did you know that you can delete your old postings if they haven't received an answer yet? Instead of ap…
Comment: How to compare subset of samples from VCF files
by
Marco
• 0
Here's the vcf file as code block ``` ##fileformat=VCFv4.2 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth"> ##FOR…
Comment: Gviz and custom database
by
James W. MacDonald
66k
The vignette for `Gviz` says you can use a `DNAStringSet`, generated using `Biostrings`. Have you tried that?
Comment: Gviz and custom database
by
luigi.faino
• 0
Dear, this is not what I need. I need to transform a fasta sequence in a genome track usable in Gviz. L
Answer: Gviz and custom database
by
James W. MacDonald
66k
https://bioconductor.org/packages/release/bioc/vignettes/txdbmaker/inst/doc/txdbmaker.html
Votes
Answer: makeExampleDESeqDataSet using pilot data
Answer: Checking/updating package versions
Answer: Why is longestConsecutive() depreceated in version 2.72 (BioC version 3.19)?
convert data frame of Entrez IDs to Gene Symbols
Answer: LRT, pairwise comparisons and p-value adjustment
Awards
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Popular Question
to
Gordon Smyth
50k
Popular Question
to
Marco Blanchette
▴ 30
Popular Question
to
Fred Hutch (Recruiting)
▴ 40
Scholar
to
James W. MacDonald
66k
Popular Question
to
Levi Waldron
★ 1.1k
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