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RUV
•
reset
1
vote
2
replies
1.3k
views
RUV4 for microarrays
RUV4
RUV
Microarray
2.9 years ago
Antonio
• 0
5
votes
6
replies
1.6k
views
RUVseq to remove a library size artefact in a zebrafish brain RNA-seq dataset
RUVSeq
RUV
RNA-seq
updated 3.5 years ago by
James W. MacDonald
65k • written 3.5 years ago by
karissa.barthelson
▴ 20
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
3
replies
922
views
Highly variable gene analysis including RUVs batch correction
deseq2
RUV
batch
highly variable genes
updated 4.1 years ago by
tmms
• 0 • written 4.1 years ago by
f_pardow
• 0
0
votes
1
reply
1.1k
views
Using RUVs on Deseq2 but clustering still seems wrong
deseq2
ruv
batch
updated 4.5 years ago by
Michael Love
41k • written 4.5 years ago by
r.tom
• 0
0
votes
0
replies
877
views
missMethyl EPIC manifest update
missmethyl
epic
illuminahumanmethylationepicanno.ilm10b4.hg19.
ruv
5.6 years ago
peter.fransquet
• 0
0
votes
0
replies
867
views
which value from ruvadj in missMethyl can present methylation status
methylation
missmethyl
RUV
batch effect
5.9 years ago
RC
• 0
0
votes
0
replies
885
views
MissMethyl: Sample size and control probes
missmethyl
RUV
control probes
5.9 years ago
Taub, Margaret
▴ 10
2
votes
9
replies
2.5k
views
Zero inflation in RUV normalization and DE for single cell data
ruv
ruvseq
ruvnormalize
single-cell
zero-inflated
updated 6.6 years ago by
davide risso
▴ 950 • written 6.6 years ago by
Nik Tuzov
▴ 80
1
vote
3
replies
2.2k
views
Does it make sense to consider RUVr normalization for single cell RNA analysis?
RUV
ruvseq
ruvr
ruvnormalize
single cell
6.7 years ago
Nik Tuzov
▴ 80
0
votes
0
replies
892
views
Differential expressed genes between different samples in RUVseq
rnaseq
ruv
differential gene expression
R
6.8 years ago
manish20072013
• 0
3
votes
4
replies
3.1k
views
Single cells batch effects
RUV
single cell
batch effect
7.0 years ago
ribioinfo
▴ 100
0
votes
0
replies
975
views
Has anyone used the RUV package for Microbiome data?
ruv
7.1 years ago
sasha
• 0
0
votes
1
reply
2.2k
views
Can FPKM or TPM values be used as RUVs input ?
ruvseq
ruvg
ruv
updated 7.2 years ago by
davide risso
▴ 950 • written 7.3 years ago by
weiwsmiling
• 0
0
votes
0
replies
1.1k
views
Bach effect and PEER/RUV correction on large population
methylation
gene expression
sva
batch effect
ruv
7.3 years ago
carleshf
▴ 10
2
votes
1
reply
1.5k
views
RUVSeq empirical negative controls? how many to take to find the span set
ruvseq
RUV
ruvnormalize
ruvg
7.7 years ago
anthonycolombo60
• 0
0
votes
5
replies
2.2k
views
RUVseq for microRNAs
ruvseq
ruv
microrna
8.7 years ago • updated 8.6 years ago
sergio.espeso-gil
• 0
0
votes
1
reply
1.6k
views
normalised data after RUV2( )
ruv
microarray
updated 8.7 years ago by
gthm
▴ 30 • written 8.9 years ago by
Pauly Lin
▴ 150
3
votes
2
replies
2.6k
views
Normalisation before RUVg and RUV2?
ruvseq
ruv
updated 8.9 years ago by
davide risso
▴ 950 • written 8.9 years ago by
Pauly Lin
▴ 150
1
vote
9
replies
2.5k
views
RUV: removing unwanted variation in RNA-seq
RUV
ruvseq
rnaseq
8.9 years ago
sergio.espeso-gil
• 0
20 results • Page
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Answer: Minfi - estimatecellscount
by
James W. MacDonald
65k
Don't filter first. You are likely removing the CpGs that are used to estimate the cell counts.
Comment: limma models out of memory issue on Slurm HPC
by
SamGG
▴ 330
> Alternatively you could run each linear model fit (var1 to var6) in a separate batch run, and again that would presumably work. I think …
Comment: fgsea fork
by
shepherl
3.8k
For What its worth BiocManager should also be able to install the github remotes `BiocManager::install("ctlab/fgsea")`
Comment: fgsea fork
by
alserg
▴ 240
I'm also not sure what you mean by fork, but you also can install the latest version of fgsea directly from GitHub with `devtools::install_…
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 …
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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