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plotMDS
•
reset
4
votes
6
replies
1.5k
views
EdgeR: Replicate samples diverge in MDS plot
edger
plotmds
6.5 years ago
fawazfebin
▴ 60
3
votes
1
reply
1.9k
views
column nubering plotMDS
edger
plotmds
updated 6.5 years ago by
Aaron Lun
★ 28k • written 6.5 years ago by
mictadlo
▴ 10
3
votes
7
replies
5.6k
views
Limma PlotMDS: what values should be used?
limma
edger
plotmds
tmm
masigpro
6.3 years ago
dacaba.92
▴ 10
2
votes
2
replies
1.1k
views
plotMDS dimensions bug
limma
plotMDS
2.6 years ago
jamie.gearing
▴ 60
2
votes
8
replies
3.6k
views
MDS Plot help in edgeR
edgeR
plotmds
differential gene expression
MDS
mdsplot
updated 5.2 years ago by
Gordon Smyth
50k • written 5.2 years ago by
ilovesuperheroes1993
• 0
2
votes
2
replies
1.2k
views
Make samples symbols bigger in PCA / MDS analysis with plotMDS function
plotMDS
PCA
RNASeq
MDS
updated 2.0 years ago by
Gordon Smyth
50k • written 2.0 years ago by
Raito92
▴ 60
1
vote
3
replies
1.6k
views
Making MDS plot
plotMDS
limma
updated 9 months ago by
Gordon Smyth
50k • written 9 months ago by
liujy4
• 0
1
vote
2
replies
719
views
loading scores using plotMDS in limma
plotMDS
limma
8 months ago • updated 7 months ago
Cen
• 0
1
vote
1
reply
1.6k
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 7.6 years ago by
Jeff Leek
▴ 650 • written 7.6 years ago by
svlachavas
▴ 830
0
votes
1
reply
706
views
Visualization of analysis of multiple cell lines
plotMDS
Cell lines
limma
updated 5.5 years ago by
Gordon Smyth
50k • written 5.5 years ago by
Alexander Azarian
▴ 30
0
votes
0
replies
894
views
Using log2FC distance matrix in Boot.Phylo to create bootstrapped trees
tree
bootstrap
dgelist
plotmds
6.0 years ago
Larry K.
• 0
0
votes
0
replies
1.1k
views
Is it possible to make some spheres around groups of points (plot3d) and measure distances between them?
rgl
plot3d
plotmds
7.9 years ago
Adam
• 0
12 results • Page
1 of 1
Recent ...
Replies
Comment: error when using M-values in ChAMP
by
hortenseguillaume96
• 0
Hello Tian, I'd like to get the M-values matrix so that I can carry out a linear regression study. However, when I apply the champ.load fu…
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…
Votes
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
Answer: error in ChAMP loading file
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Pierre Lindenbaum
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Robert Castelo
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