Showing : StatisticalMethod • reset
2
votes
2
replies
558
views
DESeq2 median of ratios normalization instead of VST or rlog for ordinations?
DESeq2 medianofratiostransformation StatisticalMethod Normalization dispersion
3 months ago Linton • 0
1
vote
2
replies
421
views
How to perform longitudinal analysis using EdgeR
StatisticalMethod FoldChange edgeR RNASeq
4 months ago Sabiha ▴ 20
2
votes
2
replies
385
views
DESeq2: Comparison of single clinical sample to 4 normals using tumour cohort to infer dispersion of single sample
GeneExpression DESeq2 RNASeqData RNASeq StatisticalMethod
5 months ago Manthos • 0
4
votes
2
replies
572
views
DecideTest vs topTAGs in edgeR
RNAseq StatisticalMethod edgeR
updated 5 months ago by 50k • written 5 months ago by ▴ 10
3
votes
2
replies
657
views
Does this RNAseq experiment require a repeated measures approach?
StatisticalMethod RNASeqData edgeR DESeq2
updated 10 months ago by 50k • written 10 months ago by ▴ 10
2
votes
3
replies
1.7k
views
deseq2 normalization and statistical method
normalization deseq2 StatisticalMethod
updated 12 months ago by ★ 4.0k • written 13 months ago by • 0
2
votes
4
replies
724
views
Model comparison in mean-dispersion trend in DESeq2
DESeq2 StatisticalMethod
14 months ago Loïc • 0
0
votes
2
replies
714
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
14 months ago rcreswell01 • 0
1
vote
3
replies
878
views
Limma-voom with inverse probability weights (similar to sample weights)
limma limma-voom StatisticalMethod
updated 14 months ago by 50k • written 14 months ago by • 0
0
votes
1
reply
521
views
DESeq2 paired multifactor test
DESeq2 StatisticalMethod
updated 16 months ago by 41k • written 17 months ago by ▴ 10
0
votes
0
replies
595
views
Job: Academic position in Non-clinical Biostatistics
JobPosting StatisticalMethod
17 months ago Laurent Gatto 1.6k
1
vote
2
replies
940
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
861
views
Job: Postdoctoral research scientist in computational biology/statistical genetics/functional genomics at Columbia University, USA
Alzheimer's StatisticalMethod Genetics molecularQTL FunctionalGenomics
19 months ago gaow • 0
0
votes
0
replies
556
views
Should I adjust p value for multi-levels (groups) and multi-variables?
StatisticalMethod
2.1 years ago dong ▴ 10
2
votes
3
replies
3.1k
views
Differential gene expression and (adjusted) p-values
edgeR StatisticalMethod
updated 23 months ago by • 0 • written 2.2 years ago by • 0
6
votes
4
replies
967
views
Limma prametrization
limm MathematicalBiology limmaGUI StatisticalMethod
2.3 years ago • updated 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
2.6 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
725
views
DESeq2 Design matrix
StatisticalMethod DESeq2
updated 2.9 years ago by 41k • written 2.9 years ago by • 0
6
votes
6
replies
1.6k
views
limma:arrayWeights() and the "prior.n" parameter for biological replicates? (PROTEOMICS)
Proteomics limma StatisticalMethod
updated 3.1 years ago by 50k • written 3.1 years ago by ▴ 10
1
vote
3
replies
1.1k
views
How to assign random effect factor in DESeq2 desing?
StatisticalMethod DESeq2 phyloseq
updated 3.2 years ago by 41k • written 3.2 years ago by • 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
3.3 years ago jol.espinoz ▴ 40
0
votes
2
replies
714
views
p adjusted value not available
StatisticalMethod DESeq2
updated 3.4 years ago by ★ 3.9k • written 3.4 years ago by • 0
23 results • Page 1 of 1
Recent ...
Replies
Comment: Differential peaks that were not identified in diffbind were identified in diseq by lonn • 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph by deeenes ▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
Answer: RNAseq:Technical replicates from different batches by Gordon Smyth 50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param by russ.bainer ▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Chris • 0
Hi Robert, If I don't want to use all pathway in c2 gene set but only a few pathways of interested, how can I do that? So we try to get a …
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
Awards • All
Scholar to Robert Castelo ★ 3.2k
Popular Question to James W. MacDonald 65k
Popular Question to shepherl 3.8k
Popular Question to BioinfGuru ▴ 30
Popular Question to Gordon Smyth 50k
Locations • All
Barcelona/Universitat Pompeu Fabra, just now
France, 19 minutes ago
China, 32 minutes ago
The city by the bay, 1 hour ago
United States, 3 hours ago
Traffic: 492 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6