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RUVnormalize
•
reset
1
vote
2
replies
193
views
Removing Unwanted Variations
DESeq2
NanoStringNCTools
RUVnormalize
RUVSeq
DifferentialExpression
7 weeks ago • updated 6 weeks ago
AZ
▴ 30
0
votes
4
replies
986
views
Confused about using RUVg in getting negative control genes using RUVg
RUVnormalize
R
edgeR
RUVSeq
RUVnormalizeData
11 months ago
Mohamed
▴ 10
0
votes
1
reply
438
views
Is RUVnormalize applicable to small dataset?
RUVnormalize
protein mi
4.6 years ago
losik
• 0
0
votes
2
replies
693
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 5.4 years ago by
Dario Strbenac
★ 1.5k • written 5.4 years ago by
massimo.acquaviva.78
• 0
2
votes
9
replies
2.0k
views
Zero inflation in RUV normalization and DE for single cell data
ruv
ruvseq
ruvnormalize
single-cell
zero-inflated
updated 5.8 years ago by
davide risso
▴ 920 • written 5.8 years ago by
Nik Tuzov
▴ 80
1
vote
3
replies
1.8k
views
Does it make sense to consider RUVr normalization for single cell RNA analysis?
RUV
ruvseq
ruvr
ruvnormalize
single cell
5.8 years ago
Nik Tuzov
▴ 80
2
votes
1
reply
1.1k
views
Decide normalisation method in RUVseq for RNAseq data
edger
ruvseq
rnaseq
normalization
ruvnormalize
updated 5.9 years ago by
davide risso
▴ 920 • written 5.9 years ago by
manish20072013
• 0
2
votes
1
reply
1.2k
views
RUVSeq empirical negative controls? how many to take to find the span set
ruvseq
RUV
ruvnormalize
ruvg
6.9 years ago
anthonycolombo60
• 0
2
votes
6
replies
1.1k
views
effect of polyploidy level on RUVs normalisation
normalization
ruvseq
ruvnormalize
ruvs eda
7.1 years ago
thomas.wolfe
• 0
0
votes
0
replies
1.1k
views
Technical Replicates and RUVs Normalisation
rnaseq
ruvnormalize
normalization
technical replicates
7.5 years ago
thomas.wolfe
• 0
1
vote
1
reply
1.0k
views
RUVnormalize- should input be pre-normalized?
ruvnormalize
microarray
normalization
updated 7.9 years ago by
laurent.jacob
▴ 10 • written 8.0 years ago by
Cornwell, Adam
▴ 110
2
votes
1
reply
1.0k
views
naiveRandRUV Error When k is 1
RUVNormalize
Subsetting
updated 7.9 years ago by
laurent.jacob
▴ 10 • written 8.0 years ago by
Dario Strbenac
★ 1.5k
12 results • Page
1 of 1
Recent ...
Replies
Comment: Question on constructing design matrix and defining contrasts for analysis
by
mohammedtoufiq91
▴ 10
Sure, noted.
Comment: Question on constructing design matrix and defining contrasts for analysis
by
mohammedtoufiq91
▴ 10
@gordonsmyth Yes, I realized while re-running through the WGCNA workflow and forget to account for the paired experiment. For general gene …
Comment: Question on constructing design matrix and defining contrasts for analysis
by
Gordon Smyth
47k
PS. Just as aside, using `dput` to show a data.frame is unnecessary overkill. Just typing `targetsframe` at the prompt would do the job.
Comment: Question on constructing design matrix and defining contrasts for analysis
by
Gordon Smyth
47k
> Basically, I want to create a design matrix and binarize by 0 and 1 to be used in WGCNA analysis to compare module between/within groups …
Comment: SummarizedExperiment is now warning on attach about `read_block` namespace confl
by
ansleyharralson
• 0
Any estimate on when DelayedArray 0.26.3 will be released for macOS Binary (arm64)? Latest is still 0.26.02 best I can tell.
Votes
WGCNA coupled with differential expression analysis: question about baseline module detection
WGCNA with paired samples
Comment: Question on constructing design matrix and defining contrasts for analysis
Comment: Question on constructing design matrix and defining contrasts for analysis
Answer: Question on constructing design matrix and defining contrasts for analysis
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