Showing : dmrcate • reset
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how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
minfi DMRcate
1 day ago xiaofeiwang198266 • 0
0
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2
replies
131
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Limma Interaction Effect with Covariates
limma DMRcate
15 days ago • updated 14 days ago kitzhu • 0
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0
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152
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DMRcate pcutoff setting
EpicV2 DMRcate
7 weeks ago kitzhu • 0
3
votes
12
replies
3.5k
views
How to get DMR for Infinium methylation EPIC v2
ChAMP DMRcate minfi
updated 4 months ago by ▴ 200 • written 12 months ago by ▴ 10
3
votes
2
replies
770
views
limma Intercept vs No-intercept models completely changing DMR results?
limma DMRcate MethylationArray EPICV2
updated 6 months ago by 52k • written 7 months ago by • 0
1
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2
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1.6k
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 7 months ago by ▴ 200 • written 21 months ago by ▴ 10
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0
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319
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DMRcate error need at least two non-NA values to interpolate
DNAMethylation DMRcate
8 months ago Macsue • 0
1
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2
replies
1.7k
views
EPIC array hg38 annotation?
minfi DMRcate
9 months ago mycetes • 0
0
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0
replies
325
views
What is the significance of DMR in DMRcate
DMRcate
10 months ago chuanjiao6 • 0
3
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2
replies
480
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Question about DMRcate
DMRcate dmrcate
10 months ago chuanjiao6 • 0
8
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7
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1.8k
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Why is DMRcate not available for Bioconductor version 3.18?
DMRcate
written 12 months ago by ▴ 30
0
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5
replies
909
views
error while running DMRcate
stattistics epicarray Epigenetics DMRcate
updated 13 months ago by 67k • written 13 months ago by ▴ 10
0
votes
1
reply
983
views
DMR.plot() Error in .local(.Object, ...) : Failed to obtain 'hguid' cookie
DMRcate DMR.plot
updated 13 months ago by 4.1k • written 13 months ago by • 0
3
votes
4
replies
1.4k
views
DMRcate design
Epigenetics EpigeneticsWorkflow DMRcate
14 months ago Jitendra ▴ 10
0
votes
1
reply
759
views
dmrcate needs at least two non-NA values to interpolate
miss DMRcate missMethyl
updated 16 months ago by ▴ 200 • written 16 months ago by • 0
2
votes
6
replies
1.5k
views
cpg.annotate() in DMRcate error
DNAMethylation methylationArrayAnalysis DMRcate MethylationArrayData MethylationArray
updated 19 months ago by ▴ 200 • written 19 months ago by • 0
6
votes
12
replies
2.3k
views
Error when loading DMRcate
DMRcate
21 months ago Bazingastats • 0
0
votes
0
replies
879
views
DMR.plot "Error: Too many stacks to draw"
DMRcate Gviz GV
21 months ago gilliangoobie • 0
2
votes
6
replies
2.2k
views
DMRcate
DMRcate R DMRcatedata Markdown
22 months ago • updated 21 months ago yr542 • 0
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0
replies
1.1k
views
How to increase font for gene name and increase arrow size for GVIZ's ( UcscTrack function ) track?
DMRcate Gviz
3.0 years ago Ahdee ▴ 50
0
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1
reply
1.1k
views
Same error that DMRcate Error in if (nsig == 0) { : missing value where TRUE/FALSE needed
DMRcate
updated 3.1 years ago by 67k • written 3.1 years ago by ▴ 30
0
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2
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1.3k
views
DMRcate: how to compare two comparisons and whether replicate is necessary
DMRcate WGBS biological_replicate
3.2 years ago xie186 • 0
0
votes
6
replies
1.6k
views
Find genes in pathways enrichment
dmrcate enrichment analysis epic array goregion missmethyl
updated 3.4 years ago by ▴ 20 • written 4.4 years ago by ▴ 10
1
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2
replies
1.7k
views
DMRcate extractRanges error
DMRcate
3.8 years ago macsue.jacques ▴ 10
0
votes
0
replies
903
views
DMRcate shows incorrect overlapping non-coding RNA genes
DMRcate
4.0 years ago Mike ▴ 10
3
votes
4
replies
1.3k
views
Is it possible to run DMRcate directly with genomic positions instead of probe names?
DMRcate
updated 4.2 years ago by ▴ 200 • written 4.2 years ago by ▴ 10
0
votes
2
replies
943
views
The smoothed Y statistic is far elevated from limma Y statistic, and parameter "betacutoff" never used
dmrcate
4.4 years ago zh9118 • 0
4
votes
9
replies
3.5k
views
DMRcate Error in if (nsig == 0) { : missing value where TRUE/FALSE needed
DMRcate differencial methylation
updated 3.1 years ago by ▴ 30 • written 4.5 years ago by ▴ 10
1
vote
8
replies
2.4k
views
extract CpGs from DMRcate results
dmrcate cpgs results.ranges DMRcate
updated 4.5 years ago by ▴ 200 • written 4.5 years ago by ▴ 40
3
votes
5
replies
1.7k
views
DMRcate: Cpgids in DMR
methylation Epic annotation DMRcate
updated 5.2 years ago by 67k • written 5.2 years ago by ▴ 10
0
votes
3
replies
1.9k
views
Significant DMRs in genes with no single significant CpG using limma
DMRcate
updated 5.3 years ago by ▴ 200 • written 5.3 years ago by • 0
0
votes
2
replies
1.4k
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cpg.annotate model requirements
DMRcate ChAMP
updated 5.4 years ago by ▴ 290 • written 5.4 years ago by • 0
1
vote
3
replies
1.5k
views
DMRcate liftover to grch38
hg19 liftover matrixeqtl DMRcate
updated 5.5 years ago by 67k • written 5.5 years ago by ▴ 10
2
votes
18
replies
5.6k
views
DMRcate results cg ID of significant DMR
dmrcate
updated 6.4 years ago by • 0 • written 8.5 years ago by ▴ 160
0
votes
3
replies
1.9k
views
DMRcate package :How to find the gene associated with coordinate
dmrcate gene symbol coordinate
6.4 years ago 574233829 • 0
2
votes
6
replies
2.2k
views
Bumphunting for longitudinal data
bumphunter minfi lmer dmrcate dmr analysis
updated 6.6 years ago by ▴ 200 • written 6.6 years ago by • 0
0
votes
3
replies
2.2k
views
error in champ.DMR using DMRcate (v2.8.3)
champ dmrcate IlluminaHumanMethylationEPICanno.ilm10b2.hg19
updated 7.5 years ago by ▴ 90 • written 7.5 years ago by • 0
1
vote
2
replies
1.8k
views
DMRcate results file ordered by genomic location and not Stouffer p-val?
DMRcate dmrcate methylation
updated 7.5 years ago by ▴ 200 • written 7.5 years ago by • 0
1
vote
3
replies
1.7k
views
coef in dmrcate
dmrcate bumphunter methylation epic
updated 7.6 years ago by 67k • written 7.6 years ago by ▴ 10
0
votes
11
replies
4.5k
views
bug in cpg.annotate() and DMR.plot: bad defaults for what and arraytype arguments
DMRcate minfi
updated 10 months ago by ▴ 200 • written 7.7 years ago by ★ 2.0k
1
vote
10
replies
3.4k
views
minfi, lumi, methylumi, DMRcate installation error
minfi lumi methylumi dmrcate illuminahumanmethylation450kanno.ilmn12.hg19
updated 7.7 years ago by ▴ 200 • written 7.7 years ago by ▴ 10
0
votes
1
reply
1.7k
views
DMRcate: Scaling factor for bandwidth
dmrcate dmr analysis dmr
updated 7.8 years ago by ▴ 200 • written 7.8 years ago by ▴ 10
0
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2
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1.6k
views
DMRcate DMR.plot Turn Off Group Means
dmrcate visualization
updated 7.9 years ago by ▴ 200 • written 7.9 years ago by • 0
1
vote
2
replies
1.3k
views
DMRcate error in extractCoords function
software error DMRcate extractRanges
updated 7.9 years ago by ▴ 200 • written 7.9 years ago by ▴ 10
0
votes
1
reply
1.1k
views
Betacutoff is not used in dmrcate function.
DMRcate
updated 7.9 years ago by ▴ 200 • written 7.9 years ago by • 0
0
votes
9
replies
20k
views
dmrcate(): Error in `$<-.data.frame`(`*tmp*`, "sig", value = logical(0)) : replacement has 0 rows, data has 1963
dmrcate
updated 7.9 years ago by ▴ 200 • written 8.1 years ago by • 0
1
vote
15
replies
2.7k
views
DMRcate results meanpvals
dmrcate
updated 8.4 years ago by ▴ 200 • written 8.4 years ago by ▴ 160
0
votes
1
reply
1.1k
views
conflicts in chromosome number
DMRcate
updated 8.4 years ago by ▴ 200 • written 8.4 years ago by • 0
2
votes
2
replies
1.9k
views
DMRcate error: object 'annotated' not found
dmrcate error
updated 9.0 years ago by ▴ 200 • written 9.0 years ago by • 0
0
votes
5
replies
2.5k
views
DMRcate cpg.annotate error: "Error in data.frame"
dmrcate
9.0 years ago par.larsson • 0
50 results • Page 1 of 1
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Answer: scuttle::perFeatureQCMetrics runs very slow for big scRNA-seq data by Aaron Lun ★ 28k
You don't mention how your matrix data is being represented, but if it's a file-backed matrix (e.g., `HDF5Matrix` or one of its variants, b…
Comment: contrast matrix design for a continuous variable by dtzhu337 • 0
Thank you, Gordon. X is time splines for time point, and yes, it's needed. However, I was also thinking to incorporate time point with se…
Answer: contrast matrix design for a continuous variable by Gordon Smyth 52k
Yes, the design and contrasts are correct. Your analysis is also adjusted for covariates defined by X, which I assume is what you want to …
Comment: fail to use addPerROIQC in Rmd by liu.n • 0
That's odd. So it can run successfully within markdown but would be failed when knitting?
Comment: fail to use addPerROIQC in Rmd by joseph.joonsang • 0
> dim(spe) [1] 19962 425
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Answer: contrast matrix design for a continuous variable
A: What's the difference between p.adjust and qvalue?
Answer: DESeq2- merging technical vs biological replicates
Comment: What type of counts data to import for performing Isoform analysis in edgeR
Answer: What type of counts data to import for performing Isoform analysis in edgeR
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