Showing : dmrcate • reset
0
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2.4k
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Significant DMRs in genes with no single significant CpG using limma
DMRcate
written 5.6 years ago by • 0
0
votes
1
reply
267
views
No preprocessing allowed for EPICv2 with DMRcate
missMethyl DMRcate
updated 12 weeks ago by 68k • written 12 weeks ago by • 0
0
votes
1
reply
1.4k
views
How to increase font for gene name and increase arrow size for GVIZ's ( UcscTrack function ) track?
DMRcate Gviz
updated 3 months ago by • 0 • written 3.3 years ago by ▴ 60
2
votes
4
replies
609
views
Can we get beta values with DMRcate package
DMRcatedata DMRcate
3 months ago Melisa Tecik • 0
4
votes
8
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1.2k
views
how to apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
DMRcate minfi
4 months ago • updated 6 weeks ago xiaofeiwang198266 • 0
1
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2
replies
322
views
Limma Interaction Effect with Covariates
limma DMRcate
4 months ago kitzhu • 0
0
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0
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286
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DMRcate pcutoff setting
EpicV2 DMRcate
5 months ago kitzhu • 0
4
votes
12
replies
4.7k
views
How to get DMR for Infinium methylation EPIC v2
ChAMP DMRcate minfi
updated 8 months ago by ▴ 230 • written 16 months ago by ▴ 20
3
votes
2
replies
903
views
limma Intercept vs No-intercept models completely changing DMR results?
limma DMRcate MethylationArray EPICV2
updated 10 months ago by 52k • written 11 months ago by • 0
1
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2
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1.9k
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 11 months ago by ▴ 230 • written 2.1 years ago by ▴ 10
0
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0
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464
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DMRcate error need at least two non-NA values to interpolate
DNAMethylation DMRcate
12 months ago Macsue • 0
1
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2
replies
2.4k
views
EPIC array hg38 annotation?
minfi DMRcate
14 months ago • updated 13 months ago mycetes • 0
0
votes
0
replies
416
views
What is the significance of DMR in DMRcate
DMRcate
14 months ago chuanjiao6 • 0
3
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2
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568
views
Question about DMRcate
DMRcate dmrcate
14 months ago chuanjiao6 • 0
8
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7
replies
2.0k
views
Why is DMRcate not available for Bioconductor version 3.18?
DMRcate
written 16 months ago by ▴ 30
0
votes
5
replies
1.0k
views
error while running DMRcate
stattistics epicarray Epigenetics DMRcate
updated 17 months ago by 68k • written 17 months ago by ▴ 10
0
votes
1
reply
1.1k
views
DMR.plot() Error in .local(.Object, ...) : Failed to obtain 'hguid' cookie
DMRcate DMR.plot
updated 17 months ago by 4.1k • written 17 months ago by • 0
3
votes
4
replies
1.5k
views
DMRcate design
Epigenetics EpigeneticsWorkflow DMRcate
18 months ago Jitendra ▴ 10
0
votes
1
reply
889
views
dmrcate needs at least two non-NA values to interpolate
miss DMRcate missMethyl
updated 20 months ago by ▴ 230 • written 20 months ago by • 0
2
votes
6
replies
1.6k
views
cpg.annotate() in DMRcate error
DNAMethylation methylationArrayAnalysis DMRcate MethylationArrayData MethylationArray
updated 23 months ago by ▴ 230 • written 23 months ago by • 0
6
votes
12
replies
2.6k
views
Error when loading DMRcate
DMRcate
2.1 years ago Bazingastats • 0
0
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0
replies
990
views
DMR.plot "Error: Too many stacks to draw"
DMRcate Gviz GV
2.1 years ago gilliangoobie • 0
2
votes
6
replies
2.5k
views
DMRcate
DMRcate R DMRcatedata Markdown
2.1 years ago yr542 • 0
0
votes
1
reply
1.2k
views
Same error that DMRcate Error in if (nsig == 0) { : missing value where TRUE/FALSE needed
DMRcate
updated 3.4 years ago by 68k • written 3.4 years ago by ▴ 30
0
votes
6
replies
1.7k
views
Find genes in pathways enrichment
dmrcate enrichment analysis epic array goregion missmethyl
updated 3.7 years ago by ▴ 20 • written 4.7 years ago by ▴ 10
1
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2
replies
1.9k
views
DMRcate extractRanges error
DMRcate
4.1 years ago macsue.jacques ▴ 10
0
votes
0
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994
views
DMRcate shows incorrect overlapping non-coding RNA genes
DMRcate
4.4 years ago Mike ▴ 10
3
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4
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1.5k
views
Is it possible to run DMRcate directly with genomic positions instead of probe names?
DMRcate
updated 4.5 years ago by ▴ 230 • written 4.5 years ago by ▴ 10
0
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2
replies
1.0k
views
The smoothed Y statistic is far elevated from limma Y statistic, and parameter "betacutoff" never used
dmrcate
4.7 years ago zh9118 • 0
4
votes
9
replies
3.7k
views
DMRcate Error in if (nsig == 0) { : missing value where TRUE/FALSE needed
DMRcate differencial methylation
updated 3.4 years ago by ▴ 30 • written 4.8 years ago by ▴ 10
1
vote
8
replies
2.7k
views
extract CpGs from DMRcate results
dmrcate cpgs results.ranges DMRcate
updated 4.9 years ago by ▴ 230 • written 4.9 years ago by ▴ 40
3
votes
5
replies
1.8k
views
DMRcate: Cpgids in DMR
methylation Epic annotation DMRcate
updated 5.5 years ago by 68k • written 5.5 years ago by ▴ 10
0
votes
2
replies
1.6k
views
cpg.annotate model requirements
DMRcate ChAMP
updated 5.7 years ago by ▴ 290 • written 5.7 years ago by • 0
1
vote
3
replies
1.6k
views
DMRcate liftover to grch38
hg19 liftover matrixeqtl DMRcate
updated 5.9 years ago by 68k • written 5.9 years ago by ▴ 10
2
votes
18
replies
6.2k
views
DMRcate results cg ID of significant DMR
dmrcate
updated 6.8 years ago by • 0 • written 8.8 years ago by ▴ 160
0
votes
3
replies
2.0k
views
DMRcate package :How to find the gene associated with coordinate
dmrcate gene symbol coordinate
6.8 years ago 574233829 • 0
2
votes
6
replies
2.4k
views
Bumphunting for longitudinal data
bumphunter minfi lmer dmrcate dmr analysis
updated 6.9 years ago by ▴ 230 • written 6.9 years ago by • 0
0
votes
3
replies
2.3k
views
error in champ.DMR using DMRcate (v2.8.3)
champ dmrcate IlluminaHumanMethylationEPICanno.ilm10b2.hg19
updated 7.8 years ago by ▴ 90 • written 7.8 years ago by • 0
1
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2
replies
1.9k
views
DMRcate results file ordered by genomic location and not Stouffer p-val?
DMRcate dmrcate methylation
updated 7.9 years ago by ▴ 230 • written 7.9 years ago by • 0
1
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3
replies
1.8k
views
coef in dmrcate
dmrcate bumphunter methylation epic
updated 8.0 years ago by 68k • written 8.0 years ago by ▴ 10
0
votes
11
replies
4.9k
views
bug in cpg.annotate() and DMR.plot: bad defaults for what and arraytype arguments
DMRcate minfi
updated 14 months ago by ▴ 230 • written 8.0 years ago by ★ 2.0k
1
vote
10
replies
3.7k
views
minfi, lumi, methylumi, DMRcate installation error
minfi lumi methylumi dmrcate illuminahumanmethylation450kanno.ilmn12.hg19
updated 8.0 years ago by ▴ 230 • written 8.1 years ago by ▴ 10
0
votes
1
reply
1.8k
views
DMRcate: Scaling factor for bandwidth
dmrcate dmr analysis dmr
updated 8.2 years ago by ▴ 230 • written 8.2 years ago by ▴ 10
0
votes
2
replies
1.8k
views
DMRcate DMR.plot Turn Off Group Means
dmrcate visualization
updated 8.2 years ago by ▴ 230 • written 8.2 years ago by • 0
1
vote
2
replies
1.4k
views
DMRcate error in extractCoords function
software error DMRcate extractRanges
updated 8.2 years ago by ▴ 230 • written 8.2 years ago by ▴ 10
0
votes
1
reply
1.2k
views
Betacutoff is not used in dmrcate function.
DMRcate
updated 8.2 years ago by ▴ 230 • written 8.2 years ago by • 0
0
votes
9
replies
21k
views
dmrcate(): Error in `$<-.data.frame`(`*tmp*`, "sig", value = logical(0)) : replacement has 0 rows, data has 1963
dmrcate
updated 8.3 years ago by ▴ 230 • written 8.4 years ago by • 0
1
vote
15
replies
2.9k
views
DMRcate results meanpvals
dmrcate
updated 8.8 years ago by ▴ 230 • written 8.8 years ago by ▴ 160
0
votes
1
reply
1.2k
views
conflicts in chromosome number
DMRcate
updated 8.8 years ago by ▴ 230 • written 8.8 years ago by • 0
2
votes
2
replies
2.0k
views
DMRcate error: object 'annotated' not found
dmrcate error
updated 9.3 years ago by ▴ 230 • written 9.3 years ago by • 0
50 results • Page 1 of 1
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Comment: DESeq2 - human data, weird results, troubleshooting by bd2000 ▴ 30
I didn't include all of my code the post would be too long. Here's a link to my GitHub if anyone would like to see the full code: [Full Rst…
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin by James W. MacDonald 68k
The simple answer is that the within-group variability is much higher for the first gene as compared to the second. The Wald statistic is j…
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin by ATpoint ★ 4.8k
> since there doesn't seem to be as much count variability, No? Your CD45 samples range on normalized scale from 2 to 3255. That's 3 orde…
Comment: Ensembl site unresponsive via biomaRt by darylruiz6545 • 0
Thank you so much for sharing the link.
Comment: compute_fasta_digest does not match Salmon index hash by Alex • 0
I use the `fastaDigest` tool from [COMBINE-lab/fastaDigest](https://github.com/COMBINE-lab/FastaDigest/), which has the function `compute_f…
Votes
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin
Two EPIC Methylation Array Analysis Questions
How to get DMR for Infinium methylation EPIC v2
A: GEOquery Fails to Download Series Matrix File
Comment: Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
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