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nanostring
•
reset
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
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
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
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
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
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
9
replies
1.5k
views
DESeq2 with nanostring data
deseq2
nanostring
4.3 years ago
acs1990
▴ 10
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
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
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
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
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
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
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
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
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
2
votes
0
replies
1.9k
views
NanoString Data Normalization Revisited
nanostring
normalization
8.5 years ago
alakatos
▴ 130
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
18 results • Page
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Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
by
Michael Love
41k
May be documented by the software you are using? https://github.com/lpantano/DEGreport
Answer: Doing comparison of RNA-seq data using Deseq2
by
Michael Love
41k
Take a look at our workflow, this starts from a beginner's level. You could export from Excel using CSV or TSV, then read into R. htt…
Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
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…
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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