Showing : plotMDS • reset
3
votes
7
replies
5.8k
views
Limma PlotMDS: what values should be used?
limma edger plotmds tmm masigpro
6.4 years ago dacaba.92 ▴ 10
1
vote
3
replies
2.0k
views
Making MDS plot
plotMDS limma
updated 11 months ago by 50k • written 11 months ago by • 0
4
votes
6
replies
1.5k
views
EdgeR: Replicate samples diverge in MDS plot
edger plotmds
6.6 years ago fawazfebin ▴ 60
0
votes
1
reply
742
views
Visualization of analysis of multiple cell lines
plotMDS Cell lines limma
updated 5.7 years ago by 50k • written 5.7 years ago by ▴ 30
2
votes
8
replies
3.8k
views
MDS Plot help in edgeR
edgeR plotmds differential gene expression MDS mdsplot
updated 5.4 years ago by 50k • written 5.4 years ago by • 0
2
votes
2
replies
1.2k
views
plotMDS dimensions bug
limma plotMDS
2.8 years ago jamie.gearing ▴ 60
2
votes
2
replies
1.3k
views
Make samples symbols bigger in PCA / MDS analysis with plotMDS function
plotMDS PCA RNASeq MDS
updated 2.2 years ago by 50k • written 2.2 years ago by ▴ 60
1
vote
2
replies
853
views
loading scores using plotMDS in limma
plotMDS limma
9 months ago Cen • 0
1
vote
1
reply
1.7k
views
Inspection of batch effect correction success with ComBat in R, regarding a merged dataset comprised of 4 different batches
affymetrix microarrays sva combat sva batch effect plotMDS
updated 7.7 years ago by ▴ 650 • written 7.7 years ago by ▴ 830
3
votes
1
reply
2.0k
views
column nubering plotMDS
edger plotmds
updated 6.7 years ago by ★ 28k • written 6.7 years ago by ▴ 10
0
votes
0
replies
934
views
Using log2FC distance matrix in Boot.Phylo to create bootstrapped trees
tree bootstrap dgelist plotmds
6.2 years ago Larry K. • 0
0
votes
0
replies
1.2k
views
Is it possible to make some spheres around groups of points (plot3d) and measure distances between them?
rgl plot3d plotmds
8.1 years ago Adam • 0
12 results • Page 1 of 1
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Replies
Answer: Documenting resources in an `ExperimentHub` package? by James W. MacDonald 66k
The easiest way to do that IMO is to use emacs/ESS (or I believe there is some newfangled thing called RStudio? Not personally familiar, bu…
Comment: ChAMP installation issue by shepherl 3.9k
We are still waiting for the goseq to respond to our requests but will take action next week if it is not resolved. ChAMP is currently una…
Comment: How to arrange multiple plots into one page in NOISeq? by baptiste.bidon • 0
After facing the same problem, I realise that you can direct your plot in the matrix with the *par()* option `par(..., mfg = c(1,2))`. If i…
Comment: ChAMP installation issue by Tahirah • 0
Hello. Could you please share how you managed to install ChAMP in R 4.4.0? I also have R 4.4.0 and Bioconductor 3.19 version and ChAMP fail…
Answer: Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data by James W. MacDonald 66k
Yes, you can use `limma`.
Votes
how to control age and gender effect in expression data using DESeq2
Answer: Error retrieving ensembl gene id using biomaRt...
Comment: LRT, more than two conditions and pairwise comparisons
Answer: Control group between 2 batches have different expression in RNAseq data
Answer: How to remove batch effect to combine RNAseq data from 2 different experiments?
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