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RUVnormalize
•
reset
1
vote
0
replies
641
views
RUVg spike-in assumption global expression
RUVSeq
RUVnormalize
18 months ago
Erdi
▴ 10
0
votes
0
replies
583
views
determine k during RUVSeq
RUVSeq
RUVnormalize
20 months ago
Ειρήνη
• 0
1
vote
2
replies
1.6k
views
Removing Unwanted Variations
DESeq2
NanoStringNCTools
RUVnormalize
RUVSeq
DifferentialExpression
2.8 years ago
AZ
▴ 20
0
votes
4
replies
3.8k
views
Confused about using RUVg in getting negative control genes using RUVg
RUVnormalize
R
edgeR
RUVSeq
RUVnormalizeData
3.6 years ago
Mohamed
▴ 30
0
votes
1
reply
908
views
Is RUVnormalize applicable to small dataset?
RUVnormalize
protein mi
7.2 years ago
losik
• 0
0
votes
2
replies
1.5k
views
RUVnormalize- How to output a corrected expression matrix without negative values to use for DEG analysis(i.e. limma) ?
RUVnormalize
limma
corrected expression matrix
microarray
updated 8.0 years ago by
Dario Strbenac
★ 1.6k • written 8.0 years ago by
massimo.acquaviva.78
• 0
2
votes
9
replies
3.7k
views
Zero inflation in RUV normalization and DE for single cell data
ruv
ruvseq
ruvnormalize
single-cell
zero-inflated
updated 8.4 years ago by
davide risso
▴ 980 • written 8.4 years ago by
Nik Tuzov
▴ 90
1
vote
3
replies
3.3k
views
Does it make sense to consider RUVr normalization for single cell RNA analysis?
RUV
ruvseq
ruvr
ruvnormalize
single cell
8.5 years ago
Nik Tuzov
▴ 90
2
votes
1
reply
1.7k
views
Decide normalisation method in RUVseq for RNAseq data
edger
ruvseq
rnaseq
normalization
ruvnormalize
updated 8.6 years ago by
davide risso
▴ 980 • written 8.6 years ago by
manish20072013
• 0
2
votes
1
reply
2.2k
views
RUVSeq empirical negative controls? how many to take to find the span set
ruvseq
RUV
ruvnormalize
ruvg
9.5 years ago
anthonycolombo60
• 0
2
votes
6
replies
2.2k
views
effect of polyploidy level on RUVs normalisation
normalization
ruvseq
ruvnormalize
ruvs eda
9.7 years ago
thomas.wolfe
• 0
0
votes
0
replies
1.8k
views
Technical Replicates and RUVs Normalisation
rnaseq
ruvnormalize
normalization
technical replicates
10.1 years ago
thomas.wolfe
• 0
1
vote
1
reply
1.7k
views
RUVnormalize- should input be pre-normalized?
ruvnormalize
microarray
normalization
updated 10.6 years ago by
laurent.jacob
▴ 10 • written 10.6 years ago by
Cornwell, Adam
▴ 110
2
votes
1
reply
1.6k
views
naiveRandRUV Error When k is 1
RUVNormalize
Subsetting
updated 10.6 years ago by
laurent.jacob
▴ 10 • written 10.6 years ago by
Dario Strbenac
★ 1.6k
14 results • Page
1 of 1
Recent ...
Replies
Answer: When to use edgeR or limma
by
Gordon Smyth
53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry
by
Gordon Smyth
53k
I updated the above answer today.
Answer: When to use edgeR or limma
by
James W. MacDonald
68k
I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
Answer: limpa-blank normalization and Spectronaut's PTM stoichiometry
by
Gordon Smyth
53k
The short answer is that limpa reads standard feature-level intensities from Spectronaut or other quantifications tools. limpa is designed …
Comment: Question about the filterByExpr function inputs in edgeR
by
mohammedtoufiq91
▴ 10
@gordonsmyth Noted, thank you very much.
Votes
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
Comment: Question about the filterByExpr function inputs in edgeR
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