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ruv
•
reset
3
votes
4
replies
3.1k
views
Single cells batch effects
RUV
single cell
batch effect
7.1 years ago
ribioinfo
▴ 100
3
votes
2
replies
2.6k
views
Normalisation before RUVg and RUV2?
ruvseq
ruv
updated 9.0 years ago by
davide risso
▴ 950 • written 9.0 years ago by
Pauly Lin
▴ 150
1
vote
9
replies
2.6k
views
RUV: removing unwanted variation in RNA-seq
RUV
ruvseq
rnaseq
9.0 years ago
sergio.espeso-gil
• 0
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 6.7 years ago by
davide risso
▴ 950 • written 6.7 years ago by
Nik Tuzov
▴ 80
0
votes
1
reply
2.3k
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
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
5
replies
2.2k
views
RUVseq for microRNAs
ruvseq
ruv
microrna
8.8 years ago • updated 8.7 years ago
sergio.espeso-gil
• 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 3.6 years ago by
James W. MacDonald
65k • written 3.6 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 4.0 years ago by
hermidalc
▴ 20 • written 4.7 years ago by
raf4
▴ 20
0
votes
1
reply
1.6k
views
normalised data after RUV2( )
ruv
microarray
updated 8.8 years ago by
gthm
▴ 30 • written 8.9 years ago by
Pauly Lin
▴ 150
2
votes
1
reply
1.5k
views
RUVSeq empirical negative controls? how many to take to find the span set
ruvseq
RUV
ruvnormalize
ruvg
7.8 years ago
anthonycolombo60
• 0
1
vote
2
replies
1.3k
views
RUV4 for microarrays
RUV4
RUV
Microarray
3.0 years ago
Antonio
• 0
0
votes
1
reply
1.2k
views
Using RUVs on Deseq2 but clustering still seems wrong
deseq2
ruv
batch
updated 4.6 years ago by
Michael Love
41k • written 4.6 years ago by
r.tom
• 0
0
votes
0
replies
1.1k
views
Bach effect and PEER/RUV correction on large population
methylation
gene expression
sva
batch effect
ruv
7.4 years ago
carleshf
▴ 10
0
votes
0
replies
987
views
Has anyone used the RUV package for Microbiome data?
ruv
7.2 years ago
sasha
• 0
0
votes
3
replies
953
views
Highly variable gene analysis including RUVs batch correction
deseq2
RUV
batch
highly variable genes
updated 4.2 years ago by
tmms
• 0 • written 4.2 years ago by
f_pardow
• 0
0
votes
0
replies
908
views
Differential expressed genes between different samples in RUVseq
rnaseq
ruv
differential gene expression
R
6.8 years ago
manish20072013
• 0
0
votes
0
replies
907
views
MissMethyl: Sample size and control probes
missmethyl
RUV
control probes
6.0 years ago
Taub, Margaret
▴ 10
0
votes
0
replies
900
views
missMethyl EPIC manifest update
missmethyl
epic
illuminahumanmethylationepicanno.ilm10b4.hg19.
ruv
5.7 years ago
peter.fransquet
• 0
0
votes
0
replies
888
views
which value from ruvadj in missMethyl can present methylation status
methylation
missmethyl
RUV
batch effect
6.0 years ago
RC
• 0
20 results • Page
1 of 1
Recent ...
Replies
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
pl23
• 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions
by
Michael Love
41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
by
ussarizona
▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative?
by
Michael Love
41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Answer: ATACseq merge peaks
by
ATpoint
★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Votes
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
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