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nanostring
•
reset
16
votes
40
replies
8.3k
views
Can NanoString data be analyzed using DESeq2?
NanoString
Differential Expressed Genes Analysis
DESeq2
updated 2.2 years ago by
Clara
• 0 • written 4.7 years ago by
lim6432
▴ 50
8
votes
13
replies
5.4k
views
DESeq2 on NanoString Data
deseq2
nanostring
updated 5.8 years ago by
Michael Love
41k • written 5.8 years ago by
casey.rimland
▴ 150
24
votes
12
replies
12k
views
Nanostring analysis with limma
nanostring
limma
updated 8.9 years ago by
ker61
▴ 20 • written 8.9 years ago by
mali salmon
▴ 370
0
votes
9
replies
1.5k
views
DESeq2 with nanostring data
deseq2
nanostring
4.3 years ago
acs1990
▴ 10
3
votes
8
replies
3.4k
views
Using DESeq2 with Nanostring data (for VST only)
deseq2
variancestabilizingtransformation
nanostring
updated 7.0 years ago by
Michael Love
41k • written 7.0 years ago by
johnmcma
▴ 10
1
vote
6
replies
1.9k
views
How to access normalized data in the NanoStringDiff package?
nanostringdiff
nanostring
NanoStringDiff
updated 5.8 years ago by
James W. MacDonald
65k • written 5.8 years ago by
casey.rimland
▴ 150
3
votes
6
replies
1.9k
views
Why NanoStringDiff package so slow?
NanoStringDiff
NanoString
nCounter
DE analysis
updated 4 months ago by
georgersmith
• 0 • written 4.6 years ago by
lim6432
▴ 50
0
votes
5
replies
1.2k
views
NanoStringDiff analysis with confounding factors
differential gene expression
nanostring
confounding factors
updated 5.3 years ago by
James W. MacDonald
65k • written 5.3 years ago by
Guillaume Robert
• 0
1
vote
4
replies
1.5k
views
how to plot multiple RLEs on same plot?
plotRLE
Nanostring
RUVSeq
DESEQ2
2.8 years ago
xiaofeiwang18266
▴ 50
0
votes
4
replies
943
views
Setting up contrasts with 'limma', patient data, small number of repeats
limma
nanostring
contrasts
updated 4.5 years ago by
Gordon Smyth
50k • written 4.5 years ago by
uridavid.akavia
• 0
2
votes
3
replies
1.5k
views
Housekeeping genes vary across contrast groups, using DESeq2 on NanoString data
NanoNormIter
DifferentialExpression
Housekeeping
DESeq2
NanoString
updated 2.2 years ago by
Michael Love
41k • written 2.2 years ago by
argonvibio
• 0
0
votes
3
replies
2.0k
views
[ExpressionSet] Question: Error in validObject(.Object)
ExpressionSet
Assay
NanoString
Error
Data
updated 20 months ago by
James W. MacDonald
65k • written 20 months ago by
junli1988
• 0
1
vote
1
reply
1.1k
views
DESeq2 confounding cartridge
deseq2
confounders
nanostring
rnaseq
differential gene expression
updated 6.0 years ago by
Michael Love
41k • written 6.0 years ago by
kim.malek88
• 0
1
vote
1
reply
1.4k
views
GSVA with NanoString nCounter data
GSVA
Nanostring
5.7 years ago • updated 5.0 years ago
SB
• 0
0
votes
1
reply
1.6k
views
Application of RUV to a small Nanostring dataset
RUV
Nanostring
RUV-III
updated 3.9 years ago by
hermidalc
▴ 20 • written 4.6 years ago by
raf4
▴ 20
0
votes
0
replies
667
views
Trying to use a NanoString expression set with batch effects to do GSVA
GSVA
Normalization
BatchEffect
GSVAdata
NanoString
14 months ago
Zhijie
• 0
2
votes
0
replies
1.9k
views
NanoString Data Normalization Revisited
nanostring
normalization
8.5 years ago
alakatos
▴ 130
0
votes
0
replies
1.3k
views
design matrix and contrast for paired experiment using NanoStringDiff for nCounter data
nanostring
NanoStringDiff
design and contrast matrix
differential gene expression
ncounter
6.7 years ago
c.kohler
• 0
18 results • Page
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Recent ...
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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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