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ruvseq
•
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0
votes
0
replies
71
views
determine k during RUVSeq
RUVSeq
RUVnormalize
6 days ago
Ειρήνη
• 0
2
votes
9
replies
441
views
Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
DESeq2
RUVSeq
RUVseq
BatchEffect
DES
updated 27 days ago by
James W. MacDonald
66k • written 27 days ago by
Alexandre
• 0
5
votes
9
replies
1.3k
views
Batch correction and repeated measures
RUVSeq
sva
limma
updated 5 weeks ago by
Gordon Smyth
50k • written 7 months ago by
Jonathan
▴ 10
3
votes
6
replies
319
views
Surrogate variable analysis for paired RNA seq experiment
RUVSeq
sva
5 weeks ago
nhaus
▴ 40
4
votes
16
replies
7.4k
views
Normalised counts from RUVg in RUVSeq
RUVg
ruvseq
rnaseq
updated 8 weeks ago by
Shaimaa Gamal
• 0 • written 9.0 years ago by
Pauly Lin
▴ 150
3
votes
2
replies
325
views
Design matrix after RUVg correction
RUVSeq
limma
DifferentialExpression
3 months ago
Shaimaa Gamal
• 0
4
votes
3
replies
392
views
voom with quality weights after RUV correction
RUVSeq
limma
DifferentialExpression
updated 3 months ago by
Gordon Smyth
50k • written 3 months ago by
Shaimaa Gamal
• 0
2
votes
3
replies
398
views
TMM normalization after RUVg correction
RUVSeq
limma
DifferentialExpression
edgeR
Normalization
updated 3 months ago by
James W. MacDonald
66k • written 3 months ago by
Shaimaa Gamal
• 0
2
votes
5
replies
492
views
Batch-resolved visualization after RUVg normalization?
RUVSeq
4 months ago
ctlong
• 0
2
votes
4
replies
1.8k
views
RUVseq design matrix for first pass of edger
ruvseq
written 8.4 years ago by
tonja.r
▴ 80
0
votes
6
replies
716
views
Unable to replicate figures of CBCS data after nSolver and RUVSeq normalization
RUVSeq
updated 6 months ago by
Michael Love
42k • written 6 months ago by
myrthevanbaardwijk
• 0
3
votes
5
replies
904
views
Getting batch corrected counts after RUVSeq
BatchEffect
RUVSeq
RNASeq
DESeq2
updated 8 months ago by
ATpoint
★ 4.1k • written 8 months ago by
Shashank
• 0
0
votes
4
replies
663
views
DESeq2 & RUVseq model matrix is less than full rank
RUVSeq
DESeq2
9 months ago
anne.hoffrichter
• 0
13 results • Page
1 of 1
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Replies
Answer: Get gene symbols for a set of hg19 coordinates
by
ATpoint
★ 4.1k
Simply download a GTF file (for example from GENCODE) matching the current genome and/or annotation version you are using in your project a…
Comment: Not able to install any Bioconductor 3.18 package [unable to access index]
by
ATpoint
★ 4.1k
Try the mirror suggestion for now: https://support.bioconductor.org/p/9153734/#9153755
Comment: unable to access bioconductor packages - qvalue installation failed...
by
ATpoint
★ 4.1k
Seems to be a general problem at the moment, can reproduce. The the mirror suggestion here: https://support.bioconductor.org/p/9153734/#915…
Comment: Running ENmix with mouse methylation manifest: readidat error - Error in readman
by
Karosham.Reddy
• 0
Thank you for the suggestion the ENmix version is using is ENmix_1.38.01. I tried your suggested code, R identified the idat files but sti…
Comment: pathview error
by
Guido Hooiveld
★ 4.0k
> Will removing the NA values help solve the problem? Did you try? And, FWIW, in the cases I had ensembl-based RNA-seq datasets I removed…
Votes
Comment: recount3 problem downloading data from source sra
Not able to install any Bioconductor 3.18 package [unable to access index]
unable to access bioconductor packages - qvalue installation failed...
Not able to install any Bioconductor 3.18 package [unable to access index]
can't open mghp.osn.xsede.org
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