Showing : DMRcate • reset
0
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544
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Filtering out non-variable probes from EPICv2 matrix
DMRcate EPICv2manifest
updated 8 months ago by 68k • written 8 months ago by • 0
0
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0
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489
views
Significant Probes and Genes differ in Probe and Region level Differential Methylation Analyses
limma probe DMRcate GenomicRanges DifferentialMethylation
8 months ago jamiecatalano2 • 0
0
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4
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2.9k
views
Significant DMRs in genes with no single significant CpG using limma
DMRcate
written 6.4 years ago by • 0
0
votes
1
reply
637
views
No preprocessing allowed for EPICv2 with DMRcate
missMethyl DMRcate
updated 12 months ago by 68k • written 12 months ago by • 0
0
votes
1
reply
1.8k
views
How to increase font for gene name and increase arrow size for GVIZ's ( UcscTrack function ) track?
DMRcate Gviz
updated 12 months ago by • 0 • written 4.1 years ago by ▴ 60
2
votes
4
replies
962
views
Can we get beta values with DMRcate package
DMRcatedata DMRcate
13 months ago Melisa Tecik • 0
4
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8
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2.0k
views
how to apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
DMRcate minfi
13 months ago • updated 10 months ago xiaofeiwang198266 • 0
1
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2
replies
540
views
Limma Interaction Effect with Covariates
limma DMRcate
13 months ago kitzhu • 0
0
votes
0
replies
475
views
DMRcate pcutoff setting
EpicV2 DMRcate
15 months ago kitzhu • 0
4
votes
12
replies
6.0k
views
How to get DMR for Infinium methylation EPIC v2
ChAMP DMRcate minfi
updated 17 months ago by ▴ 230 • written 2.1 years ago by ▴ 20
3
votes
2
replies
1.1k
views
limma Intercept vs No-intercept models completely changing DMR results?
limma DMRcate MethylationArray EPICV2
updated 19 months ago by 53k • written 20 months ago by • 0
1
vote
2
replies
2.4k
views
DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, parametric = FALSE, : NA/NaN/Inf in foreign function call (arg 1)"
DMRcate Gviz
updated 20 months ago by ▴ 230 • written 2.9 years ago by ▴ 10
0
votes
0
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702
views
DMRcate error need at least two non-NA values to interpolate
DNAMethylation DMRcate
21 months ago Macsue • 0
1
vote
2
replies
3.2k
views
EPIC array hg38 annotation?
minfi DMRcate
23 months ago mycetes • 0
0
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0
replies
597
views
What is the significance of DMR in DMRcate
DMRcate
23 months ago chuanjiao6 • 0
3
votes
2
replies
840
views
Question about DMRcate
DMRcate dmrcate
23 months ago chuanjiao6 • 0
8
votes
7
replies
2.4k
views
Why is DMRcate not available for Bioconductor version 3.18?
DMRcate
written 2.1 years ago by ▴ 30
0
votes
5
replies
1.3k
views
error while running DMRcate
stattistics epicarray Epigenetics DMRcate
updated 2.2 years ago by 68k • written 2.2 years ago by ▴ 10
0
votes
1
reply
1.2k
views
DMR.plot() Error in .local(.Object, ...) : Failed to obtain 'hguid' cookie
DMRcate DMR.plot
updated 2.2 years ago by 4.2k • written 2.2 years ago by • 0
3
votes
4
replies
1.8k
views
DMRcate design
Epigenetics EpigeneticsWorkflow DMRcate
2.3 years ago Jitendra ▴ 10
0
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1
reply
1.2k
views
dmrcate needs at least two non-NA values to interpolate
miss DMRcate missMethyl
updated 2.4 years ago by ▴ 230 • written 2.4 years ago by • 0
2
votes
6
replies
2.0k
views
cpg.annotate() in DMRcate error
DNAMethylation methylationArrayAnalysis DMRcate MethylationArrayData MethylationArray
updated 2.7 years ago by ▴ 230 • written 2.7 years ago by • 0
6
votes
12
replies
3.2k
views
Error when loading DMRcate
DMRcate
2.9 years ago Bazingastats • 0
0
votes
0
replies
1.2k
views
DMR.plot "Error: Too many stacks to draw"
DMRcate Gviz GV
2.9 years ago gilliangoobie • 0
2
votes
6
replies
2.9k
views
DMRcate
DMRcate R DMRcatedata Markdown
2.9 years ago yr542 • 0
0
votes
1
reply
1.4k
views
Same error that DMRcate Error in if (nsig == 0) { : missing value where TRUE/FALSE needed
DMRcate
updated 4.2 years ago by 68k • written 4.2 years ago by ▴ 30
0
votes
6
replies
2.1k
views
Find genes in pathways enrichment
dmrcate enrichment analysis epic array goregion missmethyl
updated 4.5 years ago by ▴ 20 • written 5.5 years ago by ▴ 10
1
vote
2
replies
2.1k
views
DMRcate extractRanges error
DMRcate
4.9 years ago • updated 4.8 years ago macsue.jacques ▴ 10
0
votes
0
replies
1.1k
views
DMRcate shows incorrect overlapping non-coding RNA genes
DMRcate
5.1 years ago Mike ▴ 10
3
votes
4
replies
1.8k
views
Is it possible to run DMRcate directly with genomic positions instead of probe names?
DMRcate
updated 5.3 years ago by ▴ 230 • written 5.3 years ago by ▴ 10
0
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2
replies
1.3k
views
The smoothed Y statistic is far elevated from limma Y statistic, and parameter "betacutoff" never used
dmrcate
5.4 years ago zh9118 • 0
4
votes
9
replies
4.2k
views
DMRcate Error in if (nsig == 0) { : missing value where TRUE/FALSE needed
DMRcate differencial methylation
updated 4.2 years ago by ▴ 30 • written 5.6 years ago by ▴ 10
1
vote
8
replies
3.2k
views
extract CpGs from DMRcate results
dmrcate cpgs results.ranges DMRcate
updated 5.6 years ago by ▴ 230 • written 5.6 years ago by ▴ 40
3
votes
5
replies
2.1k
views
DMRcate: Cpgids in DMR
methylation Epic annotation DMRcate
updated 6.3 years ago by 68k • written 6.3 years ago by ▴ 10
0
votes
2
replies
1.9k
views
cpg.annotate model requirements
DMRcate ChAMP
updated 6.5 years ago by ▴ 290 • written 6.5 years ago by • 0
1
vote
3
replies
1.8k
views
DMRcate liftover to grch38
hg19 liftover matrixeqtl DMRcate
updated 6.6 years ago by 68k • written 6.6 years ago by ▴ 10
2
votes
18
replies
7.1k
views
DMRcate results cg ID of significant DMR
dmrcate
updated 7.5 years ago by • 0 • written 9.6 years ago by ▴ 160
0
votes
3
replies
2.3k
views
DMRcate package :How to find the gene associated with coordinate
dmrcate gene symbol coordinate
7.5 years ago 574233829 • 0
2
votes
6
replies
2.8k
views
Bumphunting for longitudinal data
bumphunter minfi lmer dmrcate dmr analysis
updated 7.7 years ago by ▴ 230 • written 7.7 years ago by • 0
0
votes
3
replies
2.6k
views
error in champ.DMR using DMRcate (v2.8.3)
champ dmrcate IlluminaHumanMethylationEPICanno.ilm10b2.hg19
updated 8.6 years ago by ▴ 90 • written 8.6 years ago by • 0
1
vote
2
replies
2.2k
views
DMRcate results file ordered by genomic location and not Stouffer p-val?
DMRcate dmrcate methylation
updated 8.6 years ago by ▴ 230 • written 8.6 years ago by • 0
1
vote
3
replies
2.1k
views
coef in dmrcate
dmrcate bumphunter methylation epic
updated 8.7 years ago by 68k • written 8.7 years ago by ▴ 10
0
votes
11
replies
5.6k
views
bug in cpg.annotate() and DMR.plot: bad defaults for what and arraytype arguments
DMRcate minfi
updated 23 months ago by ▴ 230 • written 8.8 years ago by ★ 2.0k
1
vote
10
replies
4.1k
views
minfi, lumi, methylumi, DMRcate installation error
minfi lumi methylumi dmrcate illuminahumanmethylation450kanno.ilmn12.hg19
updated 8.8 years ago by ▴ 230 • written 8.8 years ago by ▴ 10
0
votes
1
reply
2.0k
views
DMRcate: Scaling factor for bandwidth
dmrcate dmr analysis dmr
updated 8.9 years ago by ▴ 230 • written 8.9 years ago by ▴ 10
0
votes
2
replies
2.0k
views
DMRcate DMR.plot Turn Off Group Means
dmrcate visualization
updated 9.0 years ago by ▴ 230 • written 9.0 years ago by • 0
1
vote
2
replies
1.6k
views
DMRcate error in extractCoords function
software error DMRcate extractRanges
updated 9.0 years ago by ▴ 230 • written 9.0 years ago by ▴ 10
0
votes
1
reply
1.3k
views
Betacutoff is not used in dmrcate function.
DMRcate
updated 9.0 years ago by ▴ 230 • written 9.0 years ago by • 0
0
votes
9
replies
22k
views
dmrcate(): Error in `$<-.data.frame`(`*tmp*`, "sig", value = logical(0)) : replacement has 0 rows, data has 1963
dmrcate
updated 9.0 years ago by ▴ 230 • written 9.2 years ago by • 0
1
vote
15
replies
3.4k
views
DMRcate results meanpvals
dmrcate
updated 9.5 years ago by ▴ 230 • written 9.5 years ago by ▴ 160
56 results • Page 1 of 2
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Comment: Ensembl plants at annotationHub? by jwp48 • 0
Nope I don't mind haha! Anyway thanks so much! Thats super kind of you!
Answer: Combining two proteomics datasets with limpa by Gordon Smyth 53k
Hi Andrew, We don't have that much experience combining different datasets with limpa yet, but my feeling is that the same DPC should be u…
Comment: Guitar R package requires update due to dependency GenomicFeatures by ferran.llobet.cabau ▴ 10
Thank you @seandavi for your feedback. I followed your recommendations and generated a [pull request][1] including the fix for this issue…
Comment: Ensembl plants at annotationHub? by Guido Hooiveld ★ 4.1k
Hope you don't mind I am not Johannes... ;-) Note that you nowadays can generate these yourselves using the `docker` image Johannes made av…
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by jtsy6383 • 0
Thanks for the reminder about DiffVar (for that project I ended up using GAMLSS in the end and haven't touched DiffVar since) and the alter…
Votes
A: What is logFC and "B" in methylation analysis ??
limma moderated t-statistics and B-statistics
Comment: Guitar R package requires update due to dependency GenomicFeatures
A: how to control age and gender effect in expression data using DESeq2
A: how to control age and gender effect in expression data using DESeq2
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