Showing : plotMDS • reset
1
vote
2
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1.5k
views
loading scores using plotMDS in limma
plotMDS limma
21 months ago Cen • 0
1
vote
3
replies
4.6k
views
Making MDS plot
plotMDS limma
updated 23 months ago by 52k • written 23 months ago by • 0
2
votes
2
replies
1.9k
views
Make samples symbols bigger in PCA / MDS analysis with plotMDS function
plotMDS PCA RNASeq MDS
updated 3.1 years ago by 52k • written 3.1 years ago by ▴ 60
2
votes
2
replies
1.7k
views
plotMDS dimensions bug
limma plotMDS
3.8 years ago jamie.gearing ▴ 60
2
votes
8
replies
5.1k
views
MDS Plot help in edgeR
edgeR plotmds differential gene expression MDS mdsplot
updated 6.3 years ago by 52k • written 6.3 years ago by • 0
0
votes
1
reply
949
views
Visualization of analysis of multiple cell lines
plotMDS Cell lines limma
updated 6.7 years ago by 52k • written 6.7 years ago by ▴ 30
0
votes
0
replies
1.2k
views
Using log2FC distance matrix in Boot.Phylo to create bootstrapped trees
tree bootstrap dgelist plotmds
7.2 years ago Larry K. • 0
3
votes
7
replies
7.0k
views
Limma PlotMDS: what values should be used?
limma edger plotmds tmm masigpro
7.4 years ago dacaba.92 ▴ 10
4
votes
6
replies
2.0k
views
EdgeR: Replicate samples diverge in MDS plot
edger plotmds
7.6 years ago fawazfebin ▴ 60
3
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1
reply
2.4k
views
column nubering plotMDS
edger plotmds
updated 7.6 years ago by ★ 28k • written 7.6 years ago by ▴ 10
1
vote
1
reply
1.9k
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 8.7 years ago by ▴ 650 • written 8.7 years ago by ▴ 840
0
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0
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1.4k
views
Is it possible to make some spheres around groups of points (plot3d) and measure distances between them?
rgl plot3d plotmds
9.1 years ago Adam • 0
12 results • Page 1 of 1
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Answer: DESeq2 Apeglm Coefficient Reordering / Log2FoldChange Comparison Change by James W. MacDonald 68k
Yes, you can simply flip the sign of the logFC to reverse the direction of the comparison.
Comment: Heatmap of a transformed deseq object with pheatmap by James W. MacDonald 68k
The argument for annotation_col is meant to be a `data.frame`, not a vector. The hint in the error is that it has the wrong number of dimen…
Comment: Heatmap of a transformed deseq object with pheatmap by caroline.zanchi • 0
I used this argument in the second paragraph of code forthe heatmap, this is wehre I got the message Error in `[.default`(annotation_col, c…
Answer: Heatmap of a transformed deseq object with pheatmap by James W. MacDonald 68k
Ah, yes. The non-ASCII character error. My favorite! Please note that `pheatmap` is not a Bioconductor package, so you should be asking …
Comment: Heatmap of a transformed deseq object with pheatmap by caroline.zanchi • 0
It is in ! It just took longer than planned :) ... aaaand now that I added the heatmap in I realize lits of genes really do not look like t…
Votes
Comment: Heatmap of a transformed deseq object with pheatmap
DESeq2: Question about the alpha in summary() and results()
Comment: How to load scRNA-seq data from GEO
limma correction for tumor purity
limma correction for tumor purity
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