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mds
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11
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15
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edgeR - MDS Plot for Count Data
edger
DEG
mds
plot
6.6 years ago
baus87
• 0
4
votes
3
replies
2.6k
views
Saving MDS scores
MDS
edger
updated 8.3 years ago by
Gordon Smyth
50k • written 9.3 years ago by
tobler
• 0
0
votes
2
replies
1.4k
views
should i include PCs or MDSs as covariates in methylation study?
limma
methylation
R
covariate
MDS
updated 6.9 years ago by
Aaron Lun
★ 28k • written 6.9 years ago by
RC
• 0
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
922
views
How to deal with stronger effect by donor than treatment
MDS
RNA-Seq
updated 20 months ago by
Gordon Smyth
50k • written 20 months ago by
Pei
• 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
1
reply
1.5k
views
How to inteprate distances calculated by cmdscale?
differential gene expression
cmdscale
mds
7.9 years ago
Adam
• 0
0
votes
0
replies
1.2k
views
ChAMP MDS 1000 most variable positions
champ
MDS
8.3 years ago
Eric Smith
• 0
8 results • Page
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Comment: limma models out of memory issue on Slurm HPC
by
Jitendra
▴ 10
thanks Gordon, but our methylation epic array input file is quite big and we can't read it in R by just using laptop memory so we need to …
Comment: Doing comparison of RNA-seq data using EdgeR
by
Michael Love
41k
Just to clarify, when I originally posted the title and tags had listed "DESeq2" and then the post was changed after my answer was added. …
Comment: fgsea fork
by
shepherl
3.8k
Not quite sure what you mean by clone or fork the package on latest version of R. Bioconductor runs all builds on the latest version of R.…
Answer: Doing comparison of RNA-seq data using EdgeR
by
Gordon Smyth
50k
It's pretty easy to do a two-group comparison using edgeR, but you seem to be stuck at the initial stage of reading data into R. If you exp…
Answer: Differing results from plotMDS and PCAtools
by
Gordon Smyth
50k
The reason why the two plots are different is that the first plot is a PCA plot while the second is a biplot. Quite different plots. The P…
Votes
transcript name mapping between human and mouse
transcript name mapping between human and mouse
A: Error object and replacement value dimnames differ, when changing column names o
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
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