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DSS
•
reset
0
votes
2
replies
2.1k
views
Issue with SummarizedExperiment thru DSS::makeBSseqData
DSS
bsseq
summarizedexperiment
8.7 years ago • updated 8.6 years ago
Tim Peters
▴ 170
2
votes
4
replies
2.0k
views
Error: could not find function "DMLtest"
dss
8.1 years ago
kafkaskid
▴ 20
0
votes
1
reply
1.4k
views
limma design matrix missing a Date column
limma
DSS
limma
DSS
updated 10.2 years ago by
James W. MacDonald
65k • written 10.2 years ago by
Sabet, Julia A
▴ 180
0
votes
6
replies
1.6k
views
limma complex contrast matrix
DSS
DSS
updated 13.1 years ago by
Ina Hoeschele
▴ 620 • written 13.1 years ago by
Prasad Siddavatam
▴ 150
0
votes
3
replies
1.7k
views
QuasiSeq vs DSS
RNASeq
Cancer
edgeR
DSS
RNASeq
Cancer
edgeR
DSS
updated 11.1 years ago by
Ryan C. Thompson
★ 7.9k • written 11.1 years ago by
Richard Friedman
★ 2.0k
1
vote
1
reply
1.3k
views
Using surrogate variables as covariates in WGBS differential methylation calling
dmrseq
sva
DSS
updated 4.9 years ago by
keegan
▴ 60 • written 4.9 years ago by
gjl
▴ 10
0
votes
1
reply
726
views
Varying results from DSS when specifying different BSobj
DSS
DSS-single
bsseq
updated 4.5 years ago by
James W. MacDonald
65k • written 4.5 years ago by
varunorama
• 0
1
vote
2
replies
1.0k
views
BUG: `showOneDMR` from DSS package creates wrong axis labels
DSS
3.4 years ago
vi.hammer
• 0
0
votes
7
replies
2.6k
views
ERROR happens when install "DSS" package
methylationArrayAnalysis
ChAMP
DMP
DSS
updated 18 months ago by
James W. MacDonald
65k • written 23 months ago by
16301050225
• 0
1
vote
1
reply
229
views
Question about correction of confounders for EWAS
dss
DSS
updated 3 months ago by
James W. MacDonald
65k • written 3 months ago by
chuanjiao6
• 0
0
votes
0
replies
728
views
DSS for non-CpG site analysis
DSS
methylation
4.6 years ago
CalM
• 0
2
votes
4
replies
1.3k
views
How to get methylation data in count data format from "Infinium MethylationEPIC BeadChips (Illumina)" idat files
methylationArrayAnalysis
illuminaio
beadarray
DSS
bsseqData
2.2 years ago
Jojo
• 0
0
votes
0
replies
880
views
[DSS] callDMR - dis.merge option does not seem to be working
DSS
bug
troubleshooting
callDMR
4.4 years ago
matthew.kearney
• 0
0
votes
0
replies
727
views
DSS smoothing RRBS and strand collapse
DSS
BSSeq
4.1 years ago
stephanie.rialle
• 0
0
votes
1
reply
957
views
DMRfinder findDMRs.r Error - Argument is of length zero
DSS
DMRcaller
updated 11 months ago by
Noelia
• 0 • written 21 months ago by
Claire
• 0
3
votes
0
replies
703
views
DSS : Different results between DMLtest and DMLtest.multifactor
DSS
2.7 years ago
cer.chloe
▴ 30
0
votes
1
reply
1.0k
views
DSS DMLtest with different group sizes
DSS
7.7 years ago
aerval
• 0
0
votes
0
replies
1.3k
views
DSS CpG coverage threshold
DSS
WGBS
coverage
6.6 years ago
floriandeckert
▴ 30
0
votes
0
replies
877
views
DSS DMLtest Object features
DSS
DMLtest
6.1 years ago
floriandeckert
▴ 30
0
votes
0
replies
1.2k
views
DSS DMLTest Prior Estimate of theta dispersion
DSS
dmltest
bayesian
statistics
methylation
6.1 years ago
floriandeckert
▴ 30
0
votes
0
replies
492
views
Confusing DSS outputs with smoothing (DMLtest)
DSS
13 months ago
Weisheng
• 0
21 results • Page
1 of 1
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Replies
Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
by
Yveto
• 0
Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…
Answer: More regions in union when increasing DBA$config$mergeOverlap
by
Rory Stark
★ 5.2k
I think the documentation is out of sync with the code. Positive values represent gaps between intervals and negative values represent how …
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
HAK
• 0
Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
by
ATpoint
★ 4.1k
Here the error probably means that you habe genes where expression scross all samples is the same. Rowscaling is value minus mean divided b…
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
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Rory Stark
★ 5.2k
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tangming2005
▴ 190
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Ian D.
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junhui.li11
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James W. MacDonald
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