Showing : methylumi • reset
1
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1
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780
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Problems installing methylumi package
methylumi
updated 22 months ago by ★ 6.5k • written 22 months ago by • 0
0
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2
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1.2k
views
Convert MethyLumiSet into RGChannelSet (Illumina EPIC methylation data)
methylumi minfi microarray epic
4.5 years ago • updated 4.0 years ago Nala • 0
0
votes
0
replies
850
views
Error when trying to read in idat files in methylumi
methylumi 450k methylation methylome
4.7 years ago A ▴ 40
1
vote
1
reply
836
views
Valid to normalise MethylumiSet using minfi?
normalization minfi methylumi
updated 5.6 years ago by 67k • written 5.6 years ago by • 0
1
vote
2
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1.6k
views
lumi package fails to load because of a missing dependency (bumphunter)
lumi methylumi
updated 5.9 years ago by ▴ 50 • written 5.9 years ago by ▴ 30
2
votes
4
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2.9k
views
Problem in installing Bioconductor packages due to "IRanges"
lumi methylumi methyAnalysis
6.8 years ago topijush ▴ 10
1
vote
1
reply
1.1k
views
Subsetting samples and columns of a MethyLumiSet subsets QC probes
methylumi
updated 7.0 years ago by 21k • written 7.0 years ago by ▴ 160
0
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5
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2.3k
views
Is it possible to convert Methylumi object into RGChannelSet
microarray minfi methylumi illumina450k
7.9 years ago • updated 7.0 years ago poojitha.stemcell ▴ 10
0
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1.4k
views
Can't get the lumi and methylumi packages to work.
lumi methylumi
7.4 years ago gitteba • 0
0
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0
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1.4k
views
how to use Methylumi background correction (noob) in CHAMP
Methylumi NOOB CHAMP Background corection illimina 450k methylation
7.5 years ago rahel14350 ▴ 10
1
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10
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3.3k
views
minfi, lumi, methylumi, DMRcate installation error
minfi lumi methylumi dmrcate illuminahumanmethylation450kanno.ilmn12.hg19
updated 7.6 years ago by ▴ 200 • written 7.6 years ago by ▴ 10
0
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1
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1.6k
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MethylSet to MethyLumiSet
minfi methylumi watermelon
7.7 years ago Tom ▴ 10
0
votes
2
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1.6k
views
Error while using BMIQ normalisation on a methylumiSet
limma watermelon methylumi bmiq
updated 7.8 years ago by ▴ 10 • written 7.8 years ago by ▴ 10
1
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1
reply
1.4k
views
Filtering by bead count
methylumi
updated 8.6 years ago by ★ 6.5k • written 8.6 years ago by ▴ 400
4
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10
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4.8k
views
Illumina MethylationEPIC vs. 450K
methylumi minfi illuminahumanmethylation450k.db 450k methyanalysis
updated 8.6 years ago by ▴ 740 • written 8.6 years ago by ▴ 50
0
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6
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4.2k
views
Removing sex-chromosome probes from methyLumiSet
methylumi eSet illuminahumanmethylation450k.db featureFilter
updated 9.3 years ago by 67k • written 9.3 years ago by • 0
0
votes
7
replies
2.4k
views
methyAnalysis error
GO convert methylumi genoset GO convert methylumi genoset
10.9 years ago Juan Fernández Tajes ▴ 190
0
votes
10
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2.5k
views
MethyLumiM to MethyLumiSet?
convert lumi methylumi minfi wateRmelon convert lumi methylumi minfi wateRmelon
updated 10.9 years ago by ★ 4.2k • written 11.0 years ago by ▴ 190
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0
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1.1k
views
MethyLumiM to MethyLumiSet?
convert lumi methylumi convert lumi methylumi
11.0 years ago Allegra Petti ▴ 120
0
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2
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2.4k
views
Disparity between MethylLumiSet (methylumi) and RGChannelSet (minfi) - treatment of missing values
probe methylumi probe methylumi
updated 11.3 years ago by ★ 6.5k • written 11.3 years ago by ▴ 20
0
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1
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1.6k
views
problem with 'FDb.InfiniumMethylation.hg19'
BSgenome BSgenome lumi methylumi BSgenome BSgenome lumi methylumi
updated 11.3 years ago by ▴ 120 • written 11.3 years ago by 67k
0
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944
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[methylumi] concerning methylumi.bgcorr function and out-of-band intensities
methylumi methylumi
11.5 years ago Hannah Elliott ▴ 10
0
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0
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2.1k
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how to use MethyLumiM object in BMIQ(wateRmelon)
lumi methylumi lumi methylumi
11.5 years ago Guest User ★ 13k
0
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1
reply
1.4k
views
Question on Analyzing Illumina 450k methylation data
methylumi methylumi
11.6 years ago Srinivas Srikanth ▴ 70
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0
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1.0k
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[methylumi] concerning methylumi.bgcorr function and out-of-band intensities
methylumi methylumi
11.8 years ago Dylan Aïssi ▴ 30
0
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0
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1.1k
views
Large datasets in methylumi
methylumi methylumi
11.8 years ago Guest User ★ 13k
0
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0
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1.1k
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methylumi on Infiniium27k idat files
methylumi methylumi
12.4 years ago Briggs, Chris ▴ 20
0
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1.1k
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Bioconductor Digest, Vol 110, Issue 11
Normalization Cancer lumi methylumi Normalization Cancer lumi methylumi
12.5 years ago Pan Du ▴ 440
0
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1
reply
1.3k
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qcplot() error in methylumi?
methylumi methylumi
updated 12.6 years ago by ★ 4.2k • written 12.6 years ago by ▴ 10
0
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0
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1.9k
views
reading with lumi
Preprocessing PROcess lumi methylumi Preprocessing PROcess lumi methylumi
12.6 years ago Tim Triche ★ 4.2k
0
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2
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3.1k
views
convert between MethylLumiSet (methylumi) and RGChannelSet (minfi)
methylumi minfi methylumi minfi
updated 12.7 years ago by ★ 4.2k • written 12.7 years ago by ▴ 170
0
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1
reply
1.3k
views
minfi
methylumi minfi methylumi minfi
updated 12.8 years ago by ★ 6.8k • written 12.8 years ago by ▴ 400
0
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0
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1.2k
views
Error in doing QC for 450K IlluminaHumanMeth data using methylumi
methylumi methylumi
12.9 years ago Shruti Rastogi ▴ 10
0
votes
3
replies
1.6k
views
'parallel' vs 'multicore'
methylumi methylumi
updated 13.0 years ago by 25k • written 13.0 years ago by ★ 4.2k
0
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2
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1.2k
views
memory problem
Normalization lumi methylumi Normalization lumi methylumi
updated 13.3 years ago by ▴ 620 • written 13.3 years ago by 21k
0
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0
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1.0k
views
Results of QC of Demodata included in the package, HumMeth27QCReport
Normalization lumi methylumi Normalization lumi methylumi
13.9 years ago Francesco Mancuso ▴ 40
0
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3
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1.8k
views
Data from GEO in Methylumi
methylumi methylumi
updated 14.0 years ago by 21k • written 14.0 years ago by ▴ 90
0
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2
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1.4k
views
Cy5: methylated or unmethylated?
methylumi methylumi
updated 14.0 years ago by 21k • written 14.0 years ago by ▴ 720
0
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0
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1.1k
views
about normalizeMethyLumiSet
methylumi methylumi
14.1 years ago gregory voisin ▴ 430
0
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1
reply
1.2k
views
Illumina GoldenGate methylation array, methylumi
limma methylumi limma methylumi
updated 14.2 years ago by ▴ 350 • written 14.2 years ago by ▴ 10
0
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0
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902
views
methylumi: Quality Control
limma methylumi limma methylumi
14.3 years ago Jinyan Huang ▴ 50
0
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0
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1.2k
views
methylumiSet - normalization
methylumi methylumi
14.3 years ago Noemi Andor ▴ 100
0
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2
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1.3k
views
methylumi
Microarray methylumi Microarray methylumi
updated 14.8 years ago by 21k • written 14.8 years ago by ▴ 70
43 results • Page 1 of 1
Recent ...
Replies
Answer: How to subset voomLmFit (MArrayLM) object? by Gordon Smyth 51k
Yes, the current behaviour is absolutely intentional. It doesn't seem to me to be meaningful or useful to try to subset the EList object au…
Answer: Need help interpreting heatmaps from limma by James W. MacDonald 67k
Heatmaps don't do any comparisons. They just plot the underlying data in a matrix and color the blocks based (in your case) on the by-gene …
Comment: Are transformed values from rlog /vst log2 normalized counts? by Eva ▴ 10
I understood exactly what you said, but I got confused with the documentation and the info that gives about rlog because it seems to be tha…
Answer: featureCounts fails to load annotation file by James W. MacDonald 67k
I imagine Wei Shi will be along later with actual help, but for now do note that you can use an SAF file instead of a GTF. It's easy enough…
Comment: Error for AnnotationForge makeOrgPackageFromNCBI function by James W. MacDonald 67k
That error indicates that you have a file called NCBI.sqlite in your working directory that is missing some tables. You should delete that …
Votes
Answer: Are transformed values from rlog /vst log2 normalized counts?
Answer: Are transformed values from rlog /vst log2 normalized counts?
Comment: Are transformed values from rlog /vst log2 normalized counts?
Answer: Unable to install any Bioconductor package with new R 4.4.1 - path nor writable
Removing Effect of Covariate in Only a Subset of Samples in a Model Containing All Samples Loses Full Rank if Factor but not Numerical
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