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StatisticalMethod
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0
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273
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Can we compare 3 different experimental conditions with DESeq2?
DESeq2
StatisticalMethod
updated 3 months ago by
swbarnes2
★ 1.4k • written 3 months ago by
Esteban
• 0
0
votes
0
replies
203
views
Job:
Post-Doc: Development of a new method to study the distribution of the effect sizes of QTL
StatisticalMethod
Evolution
QuantitativeTrailLocus
Genetics
JobPosting
4 months ago
pierre.devillemereuil
• 0
0
votes
3
replies
584
views
Differences in differential analysis methods for RNA-Seq
DESeq2
StatisticalMethod
Proteomics
DifferentialExpression
RNASeq
updated 4 months ago by
ATpoint
★ 4.4k • written 4 months ago by
james.zhang20
• 0
2
votes
2
replies
1.5k
views
DESeq2 median of ratios normalization instead of VST or rlog for ordinations?
DESeq2
medianofratiostransformation
StatisticalMethod
Normalization
dispersion
8 months ago
Linton
• 0
1
vote
2
replies
730
views
How to perform longitudinal analysis using EdgeR
StatisticalMethod
FoldChange
edgeR
RNASeq
9 months ago
Sabiha
▴ 20
2
votes
2
replies
617
views
DESeq2: Comparison of single clinical sample to 4 normals using tumour cohort to infer dispersion of single sample
GeneExpression
DESeq2
RNASeqData
RNASeq
StatisticalMethod
10 months ago
Manthos
• 0
4
votes
2
replies
1.0k
views
DecideTest vs topTAGs in edgeR
RNAseq
StatisticalMethod
edgeR
updated 11 months ago by
Gordon Smyth
51k • written 11 months ago by
alvaroperona1
▴ 10
3
votes
2
replies
827
views
Does this RNAseq experiment require a repeated measures approach?
StatisticalMethod
RNASeqData
edgeR
DESeq2
updated 15 months ago by
Gordon Smyth
51k • written 15 months ago by
CDSPARKS
▴ 10
2
votes
3
replies
2.4k
views
deseq2 normalization and statistical method
normalization
deseq2
StatisticalMethod
updated 18 months ago by
ATpoint
★ 4.4k • written 18 months ago by
SH
• 0
2
votes
4
replies
902
views
Model comparison in mean-dispersion trend in DESeq2
DESeq2
StatisticalMethod
19 months ago
Loïc
• 0
0
votes
2
replies
893
views
Using Multi-Dimensional Scaling (MDS) to produce a vector in order to account for patient bias when constructing DGE lists from RNA-seq datasets in R?
PrincipalComponent
StatisticalMethod
edgeR
MultidimensionalScaling
Normalization
19 months ago
rcreswell01
• 0
1
vote
3
replies
1.2k
views
Limma-voom with inverse probability weights (similar to sample weights)
limma
limma-voom
StatisticalMethod
updated 20 months ago by
Gordon Smyth
51k • written 20 months ago by
jay
▴ 10
0
votes
1
reply
631
views
DESeq2 paired multifactor test
DESeq2
StatisticalMethod
updated 22 months ago by
Michael Love
42k • written 23 months ago by
ijvechetti
▴ 10
0
votes
0
replies
756
views
Job:
Academic position in Non-clinical Biostatistics
JobPosting
StatisticalMethod
23 months ago
Laurent Gatto
1.6k
1
vote
2
replies
1.2k
views
Limma adj.p.value the same for many different p.values
limmaGUI
limma
adj.p.value
StatisticalMethod
24 months ago
walkerrh95
• 0
0
votes
0
replies
1.0k
views
Job:
Postdoctoral research scientist in computational biology/statistical genetics/functional genomics at Columbia University, USA
Alzheimer's
StatisticalMethod
Genetics
molecularQTL
FunctionalGenomics
2.0 years ago
gaow
• 0
0
votes
0
replies
649
views
Should I adjust p value for multi-levels (groups) and multi-variables?
StatisticalMethod
2.5 years ago
dong
▴ 10
2
votes
3
replies
4.1k
views
Differential gene expression and (adjusted) p-values
edgeR
StatisticalMethod
updated 2.4 years ago by
ruez.richard
• 0 • written 2.7 years ago by
tmms
• 0
6
votes
4
replies
1.2k
views
Limma prametrization
limm
MathematicalBiology
limmaGUI
StatisticalMethod
2.7 years ago
Giovanni
• 0
2
votes
7
replies
1.7k
views
EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on individual patients not combined
edgeR
StatisticalMethod
3.0 years ago
Field -Ye
• 0
0
votes
2
replies
1.6k
views
To retrieve the transcript from gff file with the longest isoform
FunctionalAnnotation
StatisticalMethod
3.3 years ago
Aneesha
• 0
0
votes
1
reply
855
views
DESeq2 Design matrix
StatisticalMethod
DESeq2
updated 3.4 years ago by
Michael Love
42k • written 3.4 years ago by
Saif
• 0
6
votes
6
replies
1.9k
views
limma:arrayWeights() and the "prior.n" parameter for biological replicates? (PROTEOMICS)
Proteomics
limma
StatisticalMethod
updated 3.5 years ago by
Gordon Smyth
51k • written 3.6 years ago by
Steve
▴ 10
1
vote
3
replies
1.3k
views
How to assign random effect factor in DESeq2 desing?
StatisticalMethod
DESeq2
phyloseq
updated 3.6 years ago by
Michael Love
42k • written 3.6 years ago by
zardbid
• 0
0
votes
0
replies
1.4k
views
Why is `scale-free topology` estimated as -sign(slope) * (R^2) in WGCNA?
Network
StatisticalMethod
WGCNA
ExpressionData
3.7 years ago
jol.espinoz
▴ 40
0
votes
2
replies
820
views
p adjusted value not available
StatisticalMethod
DESeq2
updated 3.9 years ago by
Kevin Blighe
★ 4.0k • written 3.9 years ago by
marie
• 0
26 results • Page
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Recent ...
Replies
Comment: How should I run ssGSEA Hallmark Enrichment Analysis?
by
Ginny
• 0
I think the other side of this question is that the non protein coding genes would be in the "background", they would influence the ranking…
Comment: ISO a solution to rank-order introns by transcript
by
James W. MacDonald
67k
There's an error in the last line. Note that `sapply(lengths(z), seq_len)` will return a `list` because the lengths vary. We need a vector,…
Comment: BiomaRt - improved access to Ensembl ?
by
Mike Smith
★ 6.5k
Why do you want to use `useMart()` rather than `useEnsembl()`? They are essentially the same (`useEnsembl()` will eventually call `useMart(…
Comment: Installing Bioconductor packages in Docker
by
devarti.mahakalkar
• 0
I have installed BiocManager on my base image rather than having it as base image. RUN Rscript -e "install.packages('BiocManager', re…
Comment: Meta-analysis on RNA-seq data sets
by
Travis
• 0
Thank you for your suggestions and explanation of your approach!
Votes
Answer: ISO a solution to rank-order introns by transcript
Answer: ISO a solution to rank-order introns by transcript
Answer: Issues with retrieving Zea mays genes dataset: biomaRt error: looks like we're c
Answer: Issues with retrieving Zea mays genes dataset: biomaRt error: looks like we're c
Answer: addPatternDensity in 'qsea' takes too much time
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Robert Castelo
★ 3.4k
Scholar
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James W. MacDonald
67k
Popular Question
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mat149
▴ 80
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Gordon Smyth
51k
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Kevin
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