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missmethyl
•
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0
votes
0
replies
122
views
gsameth GSA: probe annotation to multiple genes
missMethyl
gsameth
6 weeks ago
nurkenber
• 0
0
votes
1
reply
181
views
No preprocessing allowed for EPICv2 with DMRcate
missMethyl
DMRcate
updated 7 weeks ago by
James W. MacDonald
68k • written 7 weeks ago by
maximuscfyeung
• 0
0
votes
2
replies
336
views
MissMethyl failed to use gometh function for EPICv2
missMethyl
EPICv2manifest
updated 7 weeks ago by
James W. MacDonald
68k • written 7 weeks ago by
maximuscfyeung
• 0
0
votes
2
replies
625
views
DMPs enrichment for MOUSE DNA methylation array
minfi
mCSEA
missme
missMethyl
updated 6 months ago by
nrenke
• 0 • written 6 months ago by
Lucie
• 0
1
vote
3
replies
1.7k
views
Error in GOmeth function of missMethyl when EPICv2 annotation is used
DNAMethylation
GO
MethylationArray
missMethyl
EPICv2
12 months ago • updated 5 months ago
s.malik
• 0
0
votes
1
reply
847
views
dmrcate needs at least two non-NA values to interpolate
miss
DMRcate
missMethyl
updated 18 months ago by
Tim Peters
▴ 230 • written 18 months ago by
b.curran
• 0
0
votes
2
replies
870
views
ageData (minfi pipeline)
ageData
missMethyl
differentialvariability
minfi
updated 11 months ago by
CHEN
• 0 • written 21 months ago by
Saanchi
• 0
1
vote
1
reply
847
views
urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis
topGO
missMethyl
MethylationArrayData
MethylationArray
updated 22 months ago by
belinda.phipson
▴ 40 • written 22 months ago by
Grace
• 0
0
votes
1
reply
755
views
topGO() analysis of DMPs in missMethyl methylation analysis
DNAMethylation
missMethyl
Pathways
22 months ago
Grace
• 0
0
votes
0
replies
541
views
goMeth
missMethyl
23 months ago
anmolanp
▴ 10
2
votes
6
replies
1.4k
views
No enriched GO terms CpGs
DNAMethylation
missMethyl
updated 24 months ago by
belinda.phipson
▴ 40 • written 24 months ago by
Joana
• 0
2
votes
3
replies
1.6k
views
GSEA for paired methylation data
missMethyl
GSEA
minfi
methylGSA
updated 2.2 years ago by
belinda.phipson
▴ 40 • written 2.2 years ago by
Lukas
• 0
0
votes
6
replies
1.7k
views
Find genes in pathways enrichment
dmrcate
enrichment analysis
epic array
goregion
missmethyl
updated 3.6 years ago by
Jovana Maksimovic
▴ 20 • written 4.6 years ago by
yoursbassanio
▴ 10
0
votes
1
reply
1.1k
views
missMethyl - get names of differentially methylated genes from gometh()
missMethyl
updated 3.6 years ago by
Jovana Maksimovic
▴ 20 • written 4.5 years ago by
stewart999
▴ 10
1
vote
2
replies
2.3k
views
Minfi read.metharray.sheet error
minfi
methylation
dataimport
minfidata
missmethyl
updated 6.4 years ago by
James W. MacDonald
68k • written 6.5 years ago by
moldach
▴ 20
0
votes
0
replies
1.1k
views
missMethyl EPIC manifest update
missmethyl
epic
illuminahumanmethylationepicanno.ilm10b4.hg19.
ruv
6.5 years ago
peter.fransquet
• 0
0
votes
0
replies
1.1k
views
missmethyl gsameth outputs matrix instead of dataframe
missmethyl
gsameth
6.7 years ago
owen.whitley
▴ 10
0
votes
1
reply
1.6k
views
Test for differential variability with missMethyl (DiffVar) using block design
missmethyl
diffvar
design matrix
limma
block
updated 6.8 years ago by
lhuang7
▴ 50 • written 7.7 years ago by
Simone
▴ 190
0
votes
0
replies
1.1k
views
which value from ruvadj in missMethyl can present methylation status
methylation
missmethyl
RUV
batch effect
6.8 years ago
RC
• 0
0
votes
0
replies
1.2k
views
MissMethyl: Sample size and control probes
missmethyl
RUV
control probes
6.8 years ago
Taub, Margaret
▴ 10
0
votes
2
replies
1.7k
views
prior.prob has opposite effects in goana and kegga?
limma
missMethyl
gometh
goana
kegga
updated 7.6 years ago by
Gordon Smyth
52k • written 7.8 years ago by
Jenny Drnevich
★ 2.0k
0
votes
3
replies
1.5k
views
Details of gene names in DE
missmethyl
updated 7.9 years ago by
James W. MacDonald
68k • written 7.9 years ago by
r.clifford
• 0
0
votes
1
reply
1.5k
views
missMethyl package: gsameth bias plots
missmethyl
plots
bias
package
updated 8.0 years ago by
belinda.phipson
▴ 40 • written 8.0 years ago by
evani.radiya.dixit
• 0
1
vote
2
replies
1.7k
views
Gene Ontology Overrepresentation Analysis with a custom level of Abstraction of GO Terminology
gene ontology
GO
overrepresentation analysis
missmethyl
gostats
updated 8.6 years ago by
James W. MacDonald
68k • written 8.6 years ago by
graggsd
• 0
1
vote
3
replies
3.4k
views
Pathway analysis of differentially methylated CpGs
limma
missmethyl
8.9 years ago
philipp24
▴ 30
3
votes
3
replies
4.0k
views
missMethyl: Gene ontology analysis
missMethyl
9.0 years ago • updated 8.9 years ago
philipp24
▴ 30
0
votes
0
replies
1.4k
views
Pathway analysis of differentially methylated CpGs
limma
missmethyl
8.9 years ago
philipp24
▴ 30
27 results • Page
1 of 1
Recent ...
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Comment: Problem using locateVariants() from the VariantAnnotation package
by
Marco
• 0
Ok, I think I found the problem. By looking at the `locateVariants()` source code, I was able to pinpoint that the problems is when trying …
Comment: Conumee for EPIC and EPICv2 copy number
by
Adam
• 0
As described on the [github](https://github.com/hovestadtlab/conumee2) the way to do this is using array_type = c("EPIC", "EPICv2") This i…
Comment: graper 1.22 Build is Broken
by
shepherl
4.1k
This is not an appropriate place to report this. this is for usage questions. maintainers are notified automatically when it is failing on …
Comment: graper 1.22 Build is Broken
by
shepherl
4.1k
This post does not fit the theme of this forum.
Comment: Unbalanced experiment with multiple samples from each patient.
by
canarias
• 0
Hi Aaron, I'm faced with an analysis that has basically the same problem as OP had, but is probably even more unbalanced: In most cases, I…
Votes
A: Unbalanced experiment with multiple samples from each patient.
Unbalanced experiment with multiple samples from each patient.
Answer: Vertical line at A=0, nothing else, on MA plot
Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct
Answer: Group-specific condition effects with individuals nested: matrix is not full ra
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Matthew McCormack
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James W. MacDonald
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• 0
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