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NanoString
•
reset
0
votes
0
replies
1.0k
views
Trying to use a NanoString expression set with batch effects to do GSVA
GSVA
Normalization
BatchEffect
GSVAdata
NanoString
22 months ago
Zhijie
• 0
0
votes
3
replies
2.6k
views
[ExpressionSet] Question: Error in validObject(.Object)
ExpressionSet
Assay
NanoString
Error
Data
updated 2.3 years ago by
James W. MacDonald
67k • written 2.3 years ago by
junli1988
• 0
2
votes
3
replies
2.0k
views
Housekeeping genes vary across contrast groups, using DESeq2 on NanoString data
NanoNormIter
DifferentialExpression
Housekeeping
DESeq2
NanoString
updated 2.8 years ago by
Michael Love
42k • written 2.8 years ago by
argonvibio
• 0
1
vote
5
replies
2.0k
views
how to plot multiple RLEs on same plot?
plotRLE
Nanostring
RUVSeq
DESEQ2
updated 3 months ago by
BioinfGuru
▴ 70 • written 3.4 years ago by
xiaofeiwang18266
▴ 50
3
votes
6
replies
2.2k
views
Why NanoStringDiff package so slow?
NanoStringDiff
NanoString
nCounter
DE analysis
updated 12 months ago by
georgersmith
• 0 • written 5.3 years ago by
lim6432
▴ 50
0
votes
1
reply
1.9k
views
Application of RUV to a small Nanostring dataset
RUV
Nanostring
RUV-III
updated 4.6 years ago by
hermidalc
▴ 20 • written 5.3 years ago by
raf4
▴ 30
0
votes
9
replies
1.8k
views
DESeq2 with nanostring data
deseq2
nanostring
4.9 years ago
acs1990
▴ 10
0
votes
4
replies
1.2k
views
Setting up contrasts with 'limma', patient data, small number of repeats
limma
nanostring
contrasts
updated 5.1 years ago by
Gordon Smyth
51k • written 5.1 years ago by
uridavid.akavia
• 0
16
votes
40
replies
9.9k
views
Can NanoString data be analyzed using DESeq2?
NanoString
Differential Expressed Genes Analysis
DESeq2
updated 2.9 years ago by
Clara
▴ 10 • written 5.3 years ago by
lim6432
▴ 50
1
vote
1
reply
1.7k
views
GSVA with NanoString nCounter data
GSVA
Nanostring
6.3 years ago • updated 5.6 years ago
SB
• 0
0
votes
5
replies
1.4k
views
NanoStringDiff analysis with confounding factors
differential gene expression
nanostring
confounding factors
updated 5.9 years ago by
James W. MacDonald
67k • written 5.9 years ago by
Guillaume Robert
• 0
1
vote
6
replies
2.2k
views
How to access normalized data in the NanoStringDiff package?
nanostringdiff
nanostring
NanoStringDiff
updated 6.4 years ago by
James W. MacDonald
67k • written 6.4 years ago by
casey.rimland
▴ 170
9
votes
13
replies
6.2k
views
DESeq2 on NanoString Data
deseq2
nanostring
updated 6.4 years ago by
Michael Love
42k • written 6.4 years ago by
casey.rimland
▴ 170
1
vote
1
reply
1.2k
views
DESeq2 confounding cartridge
deseq2
confounders
nanostring
rnaseq
differential gene expression
updated 6.6 years ago by
Michael Love
42k • written 6.6 years ago by
kim.malek88
• 0
0
votes
0
replies
1.5k
views
design matrix and contrast for paired experiment using NanoStringDiff for nCounter data
nanostring
NanoStringDiff
design and contrast matrix
differential gene expression
ncounter
7.3 years ago
c.kohler
• 0
3
votes
8
replies
3.7k
views
Using DESeq2 with Nanostring data (for VST only)
deseq2
variancestabilizingtransformation
nanostring
updated 7.6 years ago by
Michael Love
42k • written 7.6 years ago by
johnmcma
▴ 10
2
votes
0
replies
2.1k
views
NanoString Data Normalization Revisited
nanostring
normalization
9.1 years ago
alakatos
▴ 130
24
votes
12
replies
13k
views
Nanostring analysis with limma
nanostring
limma
updated 9.5 years ago by
ker61
▴ 20 • written 9.6 years ago by
mali salmon
▴ 370
18 results • Page
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Recent ...
Replies
Comment: Merge Replicates vs Mixed Model
by
abadgerw
• 0
@gabrielhoffman any insight?
Comment: makeContrastsDream for Interaction
by
abadgerw
• 0
@gabrielhoffman any insight?
Comment: ColData and ERROR: rows did not converge in beta, labelled in mcols(object)$beta
by
Michael Love
42k
That is the rows that did converge.
Answer: Is my time course analysis with DESeq2 valid?
by
Michael Love
42k
For choosing the correct statistical design, I recommend working with a local statistician or someone familiar with linear models in R. I h…
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore
by
Mike Smith
★ 6.6k
Unfortunately I received this update from the Ensembl Helpdesk on 2024-11-14: > Unfortunately, the fix is taking longer than expected and …
Votes
A: Recommendations for combining multiple 10x runs into one SingleCellExperiment
Answer: [How to construct a model.matrix ]
Answer: Handling biological replicates in DESeq2
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore
biomaRt rnorvegicus_gene_ensembl not available anymore
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