Showing : dmrcate • reset
0
votes
1
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426
views
Filtering out non-variable probes from EPICv2 matrix
DMRcate EPICv2manifest
updated 5 months ago by 68k • written 5 months ago by • 0
0
votes
0
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417
views
Significant Probes and Genes differ in Probe and Region level Differential Methylation Analyses
limma probe DMRcate GenomicRanges DifferentialMethylation
6 months ago jamiecatalano2 • 0
0
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4
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2.8k
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Significant DMRs in genes with no single significant CpG using limma
DMRcate
written 6.2 years ago by • 0
0
votes
1
reply
510
views
No preprocessing allowed for EPICv2 with DMRcate
missMethyl DMRcate
updated 9 months ago by 68k • written 9 months ago by • 0
0
votes
1
reply
1.6k
views
How to increase font for gene name and increase arrow size for GVIZ's ( UcscTrack function ) track?
DMRcate Gviz
updated 9 months ago by • 0 • written 3.9 years ago by ▴ 60
2
votes
4
replies
823
views
Can we get beta values with DMRcate package
DMRcatedata DMRcate
10 months ago Melisa Tecik • 0
4
votes
8
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1.8k
views
how to apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
DMRcate minfi
10 months ago • updated 8 months ago xiaofeiwang198266 • 0
1
vote
2
replies
492
views
Limma Interaction Effect with Covariates
limma DMRcate
11 months ago kitzhu • 0
0
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0
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430
views
DMRcate pcutoff setting
EpicV2 DMRcate
12 months ago kitzhu • 0
4
votes
12
replies
5.6k
views
How to get DMR for Infinium methylation EPIC v2
ChAMP DMRcate minfi
updated 15 months ago by ▴ 230 • written 23 months 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 17 months ago by 53k • written 17 months ago by • 0
1
vote
2
replies
2.3k
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 18 months ago by ▴ 230 • written 2.6 years ago by ▴ 10
0
votes
0
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630
views
DMRcate error need at least two non-NA values to interpolate
DNAMethylation DMRcate
18 months ago Macsue • 0
1
vote
2
replies
2.9k
views
EPIC array hg38 annotation?
minfi DMRcate
20 months ago mycetes • 0
0
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0
replies
529
views
What is the significance of DMR in DMRcate
DMRcate
20 months ago chuanjiao6 • 0
3
votes
2
replies
753
views
Question about DMRcate
DMRcate dmrcate
21 months ago chuanjiao6 • 0
8
votes
7
replies
2.3k
views
Why is DMRcate not available for Bioconductor version 3.18?
DMRcate
written 23 months ago by ▴ 30
0
votes
5
replies
1.2k
views
error while running DMRcate
stattistics epicarray Epigenetics DMRcate
updated 24 months ago by 68k • written 2.0 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 2.0 years ago by 4.2k • written 2.0 years ago by • 0
3
votes
4
replies
1.7k
views
DMRcate design
Epigenetics EpigeneticsWorkflow DMRcate
2.1 years ago Jitendra ▴ 10
0
votes
1
reply
1.1k
views
dmrcate needs at least two non-NA values to interpolate
miss DMRcate missMethyl
updated 2.2 years ago by ▴ 230 • written 2.2 years ago by • 0
2
votes
6
replies
1.9k
views
cpg.annotate() in DMRcate error
DNAMethylation methylationArrayAnalysis DMRcate MethylationArrayData MethylationArray
updated 2.5 years ago by ▴ 230 • written 2.5 years ago by • 0
6
votes
12
replies
3.1k
views
Error when loading DMRcate
DMRcate
2.7 years ago Bazingastats • 0
0
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0
replies
1.2k
views
DMR.plot "Error: Too many stacks to draw"
DMRcate Gviz GV
2.7 years ago gilliangoobie • 0
2
votes
6
replies
2.7k
views
DMRcate
DMRcate R DMRcatedata Markdown
2.7 years ago yr542 • 0
0
votes
1
reply
1.3k
views
Same error that DMRcate Error in if (nsig == 0) { : missing value where TRUE/FALSE needed
DMRcate
updated 4.0 years ago by 68k • written 4.0 years ago by ▴ 30
0
votes
6
replies
2.0k
views
Find genes in pathways enrichment
dmrcate enrichment analysis epic array goregion missmethyl
updated 4.3 years ago by ▴ 20 • written 5.3 years ago by ▴ 10
1
vote
2
replies
2.0k
views
DMRcate extractRanges error
DMRcate
4.6 years ago macsue.jacques ▴ 10
0
votes
0
replies
1.1k
views
DMRcate shows incorrect overlapping non-coding RNA genes
DMRcate
4.9 years ago Mike ▴ 10
3
votes
4
replies
1.7k
views
Is it possible to run DMRcate directly with genomic positions instead of probe names?
DMRcate
updated 5.1 years ago by ▴ 230 • written 5.1 years ago by ▴ 10
0
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2
replies
1.2k
views
The smoothed Y statistic is far elevated from limma Y statistic, and parameter "betacutoff" never used
dmrcate
5.2 years ago zh9118 • 0
4
votes
9
replies
4.1k
views
DMRcate Error in if (nsig == 0) { : missing value where TRUE/FALSE needed
DMRcate differencial methylation
updated 4.0 years ago by ▴ 30 • written 5.4 years ago by ▴ 10
1
vote
8
replies
3.0k
views
extract CpGs from DMRcate results
dmrcate cpgs results.ranges DMRcate
updated 5.4 years ago by ▴ 230 • written 5.4 years ago by ▴ 40
3
votes
5
replies
2.0k
views
DMRcate: Cpgids in DMR
methylation Epic annotation DMRcate
updated 6.0 years ago by 68k • written 6.0 years ago by ▴ 10
0
votes
2
replies
1.8k
views
cpg.annotate model requirements
DMRcate ChAMP
updated 6.2 years ago by ▴ 290 • written 6.2 years ago by • 0
1
vote
3
replies
1.7k
views
DMRcate liftover to grch38
hg19 liftover matrixeqtl DMRcate
updated 6.4 years ago by 68k • written 6.4 years ago by ▴ 10
2
votes
18
replies
6.9k
views
DMRcate results cg ID of significant DMR
dmrcate
updated 7.3 years ago by • 0 • written 9.4 years ago by ▴ 160
0
votes
3
replies
2.2k
views
DMRcate package :How to find the gene associated with coordinate
dmrcate gene symbol coordinate
7.3 years ago 574233829 • 0
2
votes
6
replies
2.6k
views
Bumphunting for longitudinal data
bumphunter minfi lmer dmrcate dmr analysis
updated 7.5 years ago by ▴ 230 • written 7.5 years ago by • 0
0
votes
3
replies
2.5k
views
error in champ.DMR using DMRcate (v2.8.3)
champ dmrcate IlluminaHumanMethylationEPICanno.ilm10b2.hg19
updated 8.3 years ago by ▴ 90 • written 8.3 years ago by • 0
1
vote
2
replies
2.1k
views
DMRcate results file ordered by genomic location and not Stouffer p-val?
DMRcate dmrcate methylation
updated 8.4 years ago by ▴ 230 • written 8.4 years ago by • 0
1
vote
3
replies
2.0k
views
coef in dmrcate
dmrcate bumphunter methylation epic
updated 8.5 years ago by 68k • written 8.5 years ago by ▴ 10
0
votes
11
replies
5.3k
views
bug in cpg.annotate() and DMR.plot: bad defaults for what and arraytype arguments
DMRcate minfi
updated 21 months ago by ▴ 230 • written 8.6 years ago by ★ 2.0k
1
vote
10
replies
3.9k
views
minfi, lumi, methylumi, DMRcate installation error
minfi lumi methylumi dmrcate illuminahumanmethylation450kanno.ilmn12.hg19
updated 8.6 years ago by ▴ 230 • written 8.6 years ago by ▴ 10
0
votes
1
reply
1.9k
views
DMRcate: Scaling factor for bandwidth
dmrcate dmr analysis dmr
updated 8.7 years ago by ▴ 230 • written 8.7 years ago by ▴ 10
0
votes
2
replies
1.9k
views
DMRcate DMR.plot Turn Off Group Means
dmrcate visualization
updated 8.8 years ago by ▴ 230 • written 8.8 years ago by • 0
1
vote
2
replies
1.5k
views
DMRcate error in extractCoords function
software error DMRcate extractRanges
updated 8.8 years ago by ▴ 230 • written 8.8 years ago by ▴ 10
0
votes
1
reply
1.3k
views
Betacutoff is not used in dmrcate function.
DMRcate
updated 8.8 years ago by ▴ 230 • written 8.8 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 8.8 years ago by ▴ 230 • written 9.0 years ago by • 0
1
vote
15
replies
3.3k
views
DMRcate results meanpvals
dmrcate
updated 9.3 years ago by ▴ 230 • written 9.3 years ago by ▴ 160
56 results • Page 1 of 2
Recent ...
Replies
Comment: Interpretation of output of AffyRNAdeg and hist commands by debasainalsa • 0
When working with AffyRNAdeg output it helps to think of the table like browsing a HEYTEA Menu each row shows a feature of your slides and …
Comment: DESeq2 for candidate gene analysis by piffelpaff ▴ 20
thank you so much for answering Dr. Love!
Answer: DESeq2 for candidate gene analysis by Michael Love 43k
Your plan 1 is reasonable. Run DESeq2 on the whole dataset to obtain size factors and moderated dispersion estimates and then extract the u…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
Oh. ``` > z <- read10xCounts(c(tmpdir, tmpdir), mtx.class = "SVT_SparseMatrix", delayed = TRUE) > class(counts(z)) [1] "DelayedMatrix" att…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
That's weird. Using the example data works for me. ``` > example(read10xCounts) rd10xC> # Mocking up some 10X genomics output. rd10xC> ex…
Votes
Answer: DESeq2 for candidate gene analysis
DESeq2 for candidate gene analysis
Answer: DESeq2 for candidate gene analysis
DESeq2 for candidate gene analysis
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