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RUVnormalize
•
reset
1
vote
0
replies
409
views
RUVg spike-in assumption global expression
RUVSeq
RUVnormalize
10 months ago
Erdi
▴ 10
0
votes
0
replies
399
views
determine k during RUVSeq
RUVSeq
RUVnormalize
12 months ago
Ειρήνη
• 0
1
vote
2
replies
1.3k
views
Removing Unwanted Variations
DESeq2
NanoStringNCTools
RUVnormalize
RUVSeq
DifferentialExpression
2.1 years ago
AZ
▴ 30
0
votes
4
replies
3.3k
views
Confused about using RUVg in getting negative control genes using RUVg
RUVnormalize
R
edgeR
RUVSeq
RUVnormalizeData
2.9 years ago
Mohamed
▴ 30
0
votes
1
reply
786
views
Is RUVnormalize applicable to small dataset?
RUVnormalize
protein mi
6.6 years ago
losik
• 0
0
votes
2
replies
1.3k
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 7.3 years ago by
Dario Strbenac
★ 1.6k • written 7.3 years ago by
massimo.acquaviva.78
• 0
2
votes
9
replies
3.2k
views
Zero inflation in RUV normalization and DE for single cell data
ruv
ruvseq
ruvnormalize
single-cell
zero-inflated
updated 7.8 years ago by
davide risso
▴ 980 • written 7.8 years ago by
Nik Tuzov
▴ 90
1
vote
3
replies
3.0k
views
Does it make sense to consider RUVr normalization for single cell RNA analysis?
RUV
ruvseq
ruvr
ruvnormalize
single cell
7.8 years ago
Nik Tuzov
▴ 90
2
votes
1
reply
1.6k
views
Decide normalisation method in RUVseq for RNAseq data
edger
ruvseq
rnaseq
normalization
ruvnormalize
updated 7.9 years ago by
davide risso
▴ 980 • written 7.9 years ago by
manish20072013
• 0
2
votes
1
reply
1.9k
views
RUVSeq empirical negative controls? how many to take to find the span set
ruvseq
RUV
ruvnormalize
ruvg
8.8 years ago
anthonycolombo60
• 0
2
votes
6
replies
1.9k
views
effect of polyploidy level on RUVs normalisation
normalization
ruvseq
ruvnormalize
ruvs eda
9.1 years ago • updated 9.0 years ago
thomas.wolfe
• 0
0
votes
0
replies
1.6k
views
Technical Replicates and RUVs Normalisation
rnaseq
ruvnormalize
normalization
technical replicates
9.4 years ago
thomas.wolfe
• 0
1
vote
1
reply
1.5k
views
RUVnormalize- should input be pre-normalized?
ruvnormalize
microarray
normalization
updated 9.9 years ago by
laurent.jacob
▴ 10 • written 9.9 years ago by
Cornwell, Adam
▴ 110
2
votes
1
reply
1.5k
views
naiveRandRUV Error When k is 1
RUVNormalize
Subsetting
updated 9.9 years ago by
laurent.jacob
▴ 10 • written 10.0 years ago by
Dario Strbenac
★ 1.6k
14 results • Page
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Replies
Comment: limma::voom vs edgeR::voomLmFit - when to use?
by
Gordon Smyth
52k
voomLmFit() is in edgeR instead of limma because it needs to call edgeR::glmFit() internally to determine which of the zero observations al…
Comment: limma::voom vs edgeR::voomLmFit - when to use?
by
Geoff
• 0
Just wondering--why was this function put into `edgeR` rather than `limma`? Maybe a bit technical, but it is a little confusing from an out…
Comment: cannot download atena annotation for human
by
Davide
• 0
Hi Robert, I was able to solve the problem. Indeed, it stems from the co-occurrence of two different AnnotationHub available for hg38. …
Comment: Setting ylims in bam coverage plot and assigning compound sashimi numbers to ove
by
macdonaldfrench7286566
• 0
Regarding the ylim for the coverage [space waves][1], have you tried accessing the ylim slot of the CoverageTrack object after you've creat…
Comment: How to left_join a tidySummarizedExperiment with a GRanges object by seqnames an
by
Kateřina
• 0
I unfortunately haven't. Non-tidy grammar is fine, but I have wanted to use tidy-only grammar. Thank you nonetheless!
Votes
Answer: DESeq2 Apeglm Coefficient Reordering / Log2FoldChange Comparison Change
Answer: DESeq2 Apeglm Coefficient Reordering / Log2FoldChange Comparison Change
Answer: DESeq2 Apeglm Coefficient Reordering / Log2FoldChange Comparison Change
Answer: GAlignments Cigar to GRanges
Answer: GAlignments Cigar to GRanges
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