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rrbs
•
reset
4
votes
5
replies
478
views
edgeR for a mixture experiment
edgeR
model-selection
RRBS
mixture-experiment
16 months ago
ingerslev
• 0
0
votes
2
replies
364
views
MethylCC for RRBS data of Cord Blood
MethylCC
RRBS
cord blood
2.0 years ago
weichen-cls
• 0
0
votes
0
replies
279
views
Does it make sense to use Biseq for DMPs/DMCs in addition to DMRs?
Biseq
Methylation
DMP
DMR
RRBS
2.1 years ago
i.s.castanho
• 0
0
votes
1
reply
222
views
BiSeq - betaResults output only contains chr1 and chr2
biseq
betaRegression
RRBS
Methylation
2.4 years ago
i.s.castanho
• 0
5
votes
14
replies
1.1k
views
Odd P-value distribution in edgeR on RRBS data
edgeR
rrbs
updated 3.6 years ago by
Gordon Smyth
46k • written 3.6 years ago by
ingerslev
• 0
0
votes
4
replies
1.2k
views
MethylKit read in issue
methykit
rrbs
updated 4.2 years ago by
Mike Smith
★ 5.7k • written 4.2 years ago by
bekah
▴ 20
0
votes
3
replies
941
views
scalability of edgeR on RRBS methylation data
edgeR
methyation
RRBS
updated 4.5 years ago by
Gordon Smyth
46k • written 4.5 years ago by
osa.zuta
▴ 40
0
votes
1
reply
708
views
BiSeq - modelling options betaRegression
biseq
RRBS
betaregression
5.4 years ago
l.eijssen
• 0
1
vote
4
replies
1.3k
views
Using SVA with RRBS data
sva
RRBS
updated 5.4 years ago by
Jeff Leek
▴ 640 • written 5.4 years ago by
mrodrigues.fernanda
▴ 10
0
votes
3
replies
1.3k
views
SVA package for RRBS - bisulfite methylation data
rrbs
batch effect
methylation
sva
updated 5.9 years ago by
dashbrook1
• 0 • written 7.0 years ago by
GFM
▴ 20
4
votes
2
replies
925
views
Bounded Regression with Limma for RRBS?
limma
rrbs
bsseq
updated 6.2 years ago by
Aaron Lun
★ 27k • written 6.2 years ago by
nhejazi
• 0
0
votes
5
replies
1.4k
views
SAAP-BS data analysis (RRBS) - BiSeq use and Coverage Histogram
biseq
RRBS
SAAP-BS
coverage
7.3 years ago
maria.maqueda
• 0
12 results • Page
1 of 1
Recent ...
Replies
Comment: unable to install.packages("spatialLIBD")
by
Leonardo Collado Torres
▴ 1000
All the solutions Lori proposed are valid. The `STexampleData` package I think has only 1 of our samples (see https://bioconductor.org/pack…
Answer: how to use Rsamtools to parse extra fields from STAR alignment
by
Martin Morgan
25k
The 'extra columns' are called 'tags' in the SAM specification. Following the documentation `?ScanBamParam` you should add `tag = "NH"`. Se…
Comment: DEXSeq: Error in reading counts from htseq "Error in FUN(X[[i]], ...) : subscrip
by
Delta._.43
▴ 10
Yes, indeed it is the same error. Here are the first few lines of my count file. ``` "ENSG00000000003":"001" 0 "ENSG00000000003":"002" 1032…
Comment: DEXSeq: Error in reading counts from htseq "Error in FUN(X[[i]], ...) : subscrip
by
Alejandro Reyes
★ 1.8k
Thanks for your detail post. I think this might be related to this issue here: https://support.bioconductor.org/p/9143537/ Just to verify…
Answer: spot- vs cell-level data access
by
Leonardo Collado Torres
▴ 1000
Hi, The `SingleCellExperiment` object you can download with `fetch_data(type = "sce")` pre-dates the creation of `SpatialExperiment`. No…
Votes
Answer: spot- vs cell-level data access
Answer: unable to install.packages("spatialLIBD")
Comment: unable to install.packages("spatialLIBD")
error running UniProt.ws
Answer: DEXSeq errors "Error in scan( line ... did not have 3 elements" and "Error in FU
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Alejandro Reyes
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to
Leonardo Collado Torres
▴ 1000
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ATpoint
★ 1.4k
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to
voogd.o
▴ 10
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