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StatisticalMethod
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reset
2
votes
2
replies
460
views
DESeq2 median of ratios normalization instead of VST or rlog for ordinations?
DESeq2
medianofratiostransformation
StatisticalMethod
Normalization
dispersion
11 weeks ago
Linton
• 0
1
vote
2
replies
365
views
How to perform longitudinal analysis using EdgeR
StatisticalMethod
FoldChange
edgeR
RNASeq
3 months ago
Sabiha
▴ 20
2
votes
2
replies
354
views
DESeq2: Comparison of single clinical sample to 4 normals using tumour cohort to infer dispersion of single sample
GeneExpression
DESeq2
RNASeqData
RNASeq
StatisticalMethod
4 months ago
Manthos
• 0
4
votes
2
replies
522
views
DecideTest vs topTAGs in edgeR
RNAseq
StatisticalMethod
edgeR
updated 4 months ago by
Gordon Smyth
50k • written 5 months ago by
alvaroperona1
▴ 10
3
votes
2
replies
631
views
Does this RNAseq experiment require a repeated measures approach?
StatisticalMethod
RNASeqData
edgeR
DESeq2
updated 9 months ago by
Gordon Smyth
50k • written 9 months ago by
CDSPARKS
▴ 10
2
votes
3
replies
1.6k
views
deseq2 normalization and statistical method
normalization
deseq2
StatisticalMethod
updated 12 months ago by
ATpoint
★ 4.0k • written 12 months ago by
SH
• 0
2
votes
4
replies
703
views
Model comparison in mean-dispersion trend in DESeq2
DESeq2
StatisticalMethod
13 months ago
Loïc
• 0
0
votes
2
replies
684
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
13 months ago
rcreswell01
• 0
1
vote
3
replies
839
views
Limma-voom with inverse probability weights (similar to sample weights)
limma
limma-voom
StatisticalMethod
updated 14 months ago by
Gordon Smyth
50k • written 14 months ago by
jay
• 0
0
votes
1
reply
509
views
DESeq2 paired multifactor test
DESeq2
StatisticalMethod
updated 16 months ago by
Michael Love
41k • written 17 months ago by
ijvechetti
▴ 10
0
votes
0
replies
569
views
Job:
Academic position in Non-clinical Biostatistics
JobPosting
StatisticalMethod
17 months ago
Laurent Gatto
1.6k
1
vote
2
replies
901
views
Limma adj.p.value the same for many different p.values
limmaGUI
limma
adj.p.value
StatisticalMethod
18 months ago
walkerrh95
• 0
0
votes
0
replies
835
views
Job:
Postdoctoral research scientist in computational biology/statistical genetics/functional genomics at Columbia University, USA
Alzheimer's
StatisticalMethod
Genetics
molecularQTL
FunctionalGenomics
18 months ago
gaow
• 0
0
votes
0
replies
545
views
Should I adjust p value for multi-levels (groups) and multi-variables?
StatisticalMethod
2.0 years ago
dong
▴ 10
2
votes
3
replies
3.0k
views
Differential gene expression and (adjusted) p-values
edgeR
StatisticalMethod
updated 23 months ago by
ruez.richard
• 0 • written 2.2 years ago by
tmms
• 0
6
votes
4
replies
945
views
Limma prametrization
limm
MathematicalBiology
limmaGUI
StatisticalMethod
2.2 years ago
Giovanni
• 0
2
votes
7
replies
1.4k
views
EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on individual patients not combined
edgeR
StatisticalMethod
2.5 years ago
Field -Ye
• 0
0
votes
2
replies
1.3k
views
To retrieve the transcript from gff file with the longest isoform
FunctionalAnnotation
StatisticalMethod
2.8 years ago
Aneesha
• 0
0
votes
1
reply
705
views
DESeq2 Design matrix
StatisticalMethod
DESeq2
updated 2.9 years ago by
Michael Love
41k • written 2.9 years ago by
Saif
• 0
6
votes
6
replies
1.6k
views
limma:arrayWeights() and the "prior.n" parameter for biological replicates? (PROTEOMICS)
Proteomics
limma
StatisticalMethod
updated 3.0 years ago by
Gordon Smyth
50k • written 3.0 years ago by
Steve
▴ 10
1
vote
3
replies
1.0k
views
How to assign random effect factor in DESeq2 desing?
StatisticalMethod
DESeq2
phyloseq
updated 3.1 years ago by
Michael Love
41k • written 3.1 years ago by
zardbid
• 0
0
votes
0
replies
1.2k
views
Why is `scale-free topology` estimated as -sign(slope) * (R^2) in WGCNA?
Network
StatisticalMethod
WGCNA
ExpressionData
3.2 years ago
jol.espinoz
▴ 40
0
votes
2
replies
700
views
p adjusted value not available
StatisticalMethod
DESeq2
updated 3.4 years ago by
Kevin Blighe
★ 3.9k • written 3.4 years ago by
marie
• 0
23 results • Page
1 of 1
Recent ...
Replies
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Comment: DEG Filtering
by
Gordon Smyth
50k
I already know that you using CEL files because you need them to perform RMA normalization. Yes, you should follow the advice I have alread…
Votes
Answer: DESeq2 "Contrast" option
Answer: error in ChAMP loading file
Circumvent creating .ff files in the working directory when using genotype.Illumina() function
Answer: Problem with maplot {affy} method when using rma {affy} method output as its inp
Answer: Microarray Limma Model fitting and DEG
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