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missmethyl
•
reset
3
votes
3
replies
3.4k
views
missMethyl: Gene ontology analysis
missMethyl
8.0 years ago
philipp24
▴ 30
1
vote
3
replies
2.9k
views
Pathway analysis of differentially methylated CpGs
limma
missmethyl
8.0 years ago
philipp24
▴ 30
1
vote
2
replies
2.0k
views
Minfi read.metharray.sheet error
minfi
methylation
dataimport
minfidata
missmethyl
updated 5.5 years ago by
James W. MacDonald
65k • written 5.5 years ago by
moldach
▴ 20
1
vote
2
replies
1.4k
views
Gene Ontology Overrepresentation Analysis with a custom level of Abstraction of GO Terminology
gene ontology
GO
overrepresentation analysis
missmethyl
gostats
updated 7.6 years ago by
James W. MacDonald
65k • written 7.6 years ago by
graggsd
• 0
0
votes
2
replies
1.4k
views
prior.prob has opposite effects in goana and kegga?
limma
missMethyl
gometh
goana
kegga
updated 6.7 years ago by
Gordon Smyth
50k • written 6.9 years ago by
Jenny Drnevich
★ 2.0k
0
votes
1
reply
1.3k
views
Test for differential variability with missMethyl (DiffVar) using block design
missmethyl
diffvar
design matrix
limma
block
updated 5.9 years ago by
lhuang7
▴ 50 • written 6.8 years ago by
Simone
▴ 180
0
votes
6
replies
1.2k
views
Find genes in pathways enrichment
dmrcate
enrichment analysis
epic array
goregion
missmethyl
updated 2.7 years ago by
Jovana Maksimovic
▴ 10 • written 3.7 years ago by
yoursbassanio
▴ 10
0
votes
3
replies
1.2k
views
Details of gene names in DE
missmethyl
updated 7.0 years ago by
James W. MacDonald
65k • written 7.0 years ago by
r.clifford
• 0
0
votes
1
reply
1.2k
views
missMethyl package: gsameth bias plots
missmethyl
plots
bias
package
updated 7.1 years ago by
belinda.phipson
▴ 40 • written 7.1 years ago by
evani.radiya.dixit
• 0
0
votes
0
replies
1.2k
views
Pathway analysis of differentially methylated CpGs
limma
missmethyl
8.0 years ago
philipp24
▴ 30
0
votes
0
replies
885
views
MissMethyl: Sample size and control probes
missmethyl
RUV
control probes
5.9 years ago
Taub, Margaret
▴ 10
2
votes
6
replies
882
views
No enriched GO terms CpGs
DNAMethylation
missMethyl
updated 12 months ago by
belinda.phipson
▴ 40 • written 12 months ago by
Joana
• 0
0
votes
0
replies
877
views
missMethyl EPIC manifest update
missmethyl
epic
illuminahumanmethylationepicanno.ilm10b4.hg19.
ruv
5.6 years ago
peter.fransquet
• 0
0
votes
0
replies
867
views
which value from ruvadj in missMethyl can present methylation status
methylation
missmethyl
RUV
batch effect
5.9 years ago
RC
• 0
2
votes
3
replies
861
views
GSEA for paired methylation data
missMethyl
GSEA
minfi
methylGSA
updated 14 months ago by
belinda.phipson
▴ 40 • written 15 months ago by
Lukas
• 0
0
votes
0
replies
818
views
missmethyl gsameth outputs matrix instead of dataframe
missmethyl
gsameth
5.8 years ago
owen.whitley
▴ 10
0
votes
1
reply
775
views
missMethyl - get names of differentially methylated genes from gometh()
missMethyl
updated 2.7 years ago by
Jovana Maksimovic
▴ 10 • written 3.6 years ago by
stewart999
▴ 10
0
votes
2
replies
525
views
ageData (minfi pipeline)
ageData
missMethyl
differentialvariability
minfi
updated 4 days ago by
CHEN
• 0 • written 10 months ago by
Saanchi
• 0
1
vote
1
reply
520
views
urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis
topGO
missMethyl
MethylationArrayData
MethylationArray
updated 11 months ago by
belinda.phipson
▴ 40 • written 11 months ago by
Grace
• 0
0
votes
1
reply
459
views
topGO() analysis of DMPs in missMethyl methylation analysis
DNAMethylation
missMethyl
Pathways
11 months ago
Grace
• 0
0
votes
1
reply
422
views
dmrcate needs at least two non-NA values to interpolate
miss
DMRcate
missMethyl
updated 7 months ago by
Tim Peters
▴ 160 • written 7 months ago by
b.curran
• 0
0
votes
0
replies
341
views
goMeth
missMethyl
12 months ago
anmolanp
▴ 10
0
votes
1
reply
179
views
Error in GOmeth function of missMethyl when EPICv2 annotation is used
DNAMethylation
GO
MethylationArray
missMethyl
EPICv2
updated 24 days ago by
belinda.phipson
▴ 40 • written 25 days ago by
saad.malik
• 0
23 results • Page
1 of 1
Recent ...
Replies
Comment: limma models out of memory issue on Slurm HPC
by
Jitendra
▴ 10
thanks Gordon, but our methylation epic array input file is quite big and we can't read it in R by just using laptop memory so we need to …
Comment: Doing comparison of RNA-seq data using EdgeR
by
Michael Love
41k
Just to clarify, when I originally posted the title and tags had listed "DESeq2" and then the post was changed after my answer was added. …
Comment: fgsea fork
by
shepherl
3.8k
Not quite sure what you mean by clone or fork the package on latest version of R. Bioconductor runs all builds on the latest version of R.…
Answer: Doing comparison of RNA-seq data using EdgeR
by
Gordon Smyth
50k
It's pretty easy to do a two-group comparison using edgeR, but you seem to be stuck at the initial stage of reading data into R. If you exp…
Answer: Differing results from plotMDS and PCAtools
by
Gordon Smyth
50k
The reason why the two plots are different is that the first plot is a PCA plot while the second is a biplot. Quite different plots. The P…
Votes
transcript name mapping between human and mouse
transcript name mapping between human and mouse
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
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