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rrbs
•
reset
4
votes
5
replies
1.2k
views
edgeR for a mixture experiment
edgeR
model-selection
RRBS
mixture-experiment
3.6 years ago
ingerslev
• 0
0
votes
2
replies
1.1k
views
MethylCC for RRBS data of Cord Blood
MethylCC
RRBS
cord blood
4.3 years ago
weichen-cls
• 0
0
votes
0
replies
902
views
Does it make sense to use Biseq for DMPs/DMCs in addition to DMRs?
Biseq
Methylation
DMP
DMR
RRBS
4.4 years ago
i.s.castanho
• 0
0
votes
1
reply
754
views
BiSeq - betaResults output only contains chr1 and chr2
biseq
betaRegression
RRBS
Methylation
4.7 years ago
i.s.castanho
• 0
5
votes
14
replies
2.4k
views
Odd P-value distribution in edgeR on RRBS data
edgeR
rrbs
updated 5.9 years ago by
Gordon Smyth
51k • written 5.9 years ago by
ingerslev
• 0
0
votes
4
replies
2.6k
views
MethylKit read in issue
methykit
rrbs
updated 6.5 years ago by
Mike Smith
★ 6.6k • written 6.5 years ago by
bekah
▴ 40
0
votes
3
replies
1.7k
views
scalability of edgeR on RRBS methylation data
edgeR
methyation
RRBS
updated 6.8 years ago by
Gordon Smyth
51k • written 6.8 years ago by
osa.zuta
▴ 40
0
votes
1
reply
1.3k
views
BiSeq - modelling options betaRegression
biseq
RRBS
betaregression
7.7 years ago
l.eijssen
• 0
1
vote
4
replies
2.1k
views
Using SVA with RRBS data
sva
RRBS
updated 7.7 years ago by
Jeff Leek
▴ 650 • written 7.7 years ago by
mrodrigues.fernanda
▴ 10
0
votes
3
replies
1.9k
views
SVA package for RRBS - bisulfite methylation data
rrbs
batch effect
methylation
sva
updated 8.1 years ago by
dashbrook1
• 0 • written 9.3 years ago by
GFM
▴ 20
4
votes
2
replies
1.6k
views
Bounded Regression with Limma for RRBS?
limma
rrbs
bsseq
updated 8.5 years ago by
Aaron Lun
★ 28k • written 8.5 years ago by
nhejazi
• 0
0
votes
5
replies
2.3k
views
SAAP-BS data analysis (RRBS) - BiSeq use and Coverage Histogram
biseq
RRBS
SAAP-BS
coverage
9.6 years ago
maria.maqueda
• 0
12 results • Page
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Answer: bioconductor packages on bioconda
by
James W. MacDonald
67k
The bioconda people are responsible for bioconda, so you should ask them if/when they are going to update.
Answer: txdb.mmusculus.ucsc.mm10.knowngene issue on X chromosome
by
James W. MacDonald
67k
The default for `plotKaryotype` is to use hg19.
Comment: Is it possible to parallelise saveHDF5SummarizedExperiment
by
Stefano Mangiola
▴ 20
saveTileDBSummarizedExperiment would be awesome. I think we need performance for execution time and memory required to save.
Comment: Create Illmina bead summary data
by
Liu
• 0
Hi! Yes, thank you! I completely agree. I am just curious about how these two files are processed with AVG_Gre and detection p-value. I am …
Answer: Epic v2 Annotation CpG_maf source?
by
James W. MacDonald
67k
Those all come from dbSNP by way of UCSC. [See here][1], particularly lines 114 and onward. Here is no MAF for a CpG. The MAF is for the…
Votes
Appropriate use of the function treat of the limma package
Comment: Is it recommended to analyze different tissues together when using edgeR
Answer: Deseq2 res Function
Answer: BiocNeighbours Utility for k-Nearest Neighbour Classification
Answer: ANOVA like approach of edgeR
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