Showing : Methylumi • reset
1
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811
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Problems installing methylumi package
methylumi
updated 24 months ago by ★ 6.6k • written 24 months ago by • 0
0
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2
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1.2k
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Convert MethyLumiSet into RGChannelSet (Illumina EPIC methylation data)
methylumi minfi microarray epic
4.6 years ago • updated 4.1 years ago Nala • 0
0
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0
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877
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Error when trying to read in idat files in methylumi
methylumi 450k methylation methylome
4.9 years ago A ▴ 40
1
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1
reply
857
views
Valid to normalise MethylumiSet using minfi?
normalization minfi methylumi
updated 5.7 years ago by 67k • written 5.7 years ago by • 0
1
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2
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1.7k
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lumi package fails to load because of a missing dependency (bumphunter)
lumi methylumi
updated 6.0 years ago by ▴ 50 • written 6.0 years ago by ▴ 30
2
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4
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3.0k
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Problem in installing Bioconductor packages due to "IRanges"
lumi methylumi methyAnalysis
6.9 years ago topijush ▴ 10
1
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1
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1.1k
views
Subsetting samples and columns of a MethyLumiSet subsets QC probes
methylumi
updated 7.1 years ago by 21k • written 7.1 years ago by ▴ 160
0
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5
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2.4k
views
Is it possible to convert Methylumi object into RGChannelSet
microarray minfi methylumi illumina450k
8.0 years ago • updated 7.1 years ago poojitha.stemcell ▴ 10
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1.4k
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Can't get the lumi and methylumi packages to work.
lumi methylumi
7.5 years ago gitteba • 0
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1.4k
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how to use Methylumi background correction (noob) in CHAMP
Methylumi NOOB CHAMP Background corection illimina 450k methylation
7.6 years ago rahel14350 ▴ 10
1
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10
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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
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1
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1.7k
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MethylSet to MethyLumiSet
minfi methylumi watermelon
7.8 years ago Tom ▴ 10
0
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2
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1.6k
views
Error while using BMIQ normalisation on a methylumiSet
limma watermelon methylumi bmiq
updated 7.9 years ago by ▴ 10 • written 7.9 years ago by ▴ 10
1
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1
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1.4k
views
Filtering by bead count
methylumi
updated 8.7 years ago by ★ 6.6k • written 8.7 years ago by ▴ 400
4
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10
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4.9k
views
Illumina MethylationEPIC vs. 450K
methylumi minfi illuminahumanmethylation450k.db 450k methyanalysis
updated 8.7 years ago by ▴ 740 • written 8.7 years ago by ▴ 50
0
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6
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4.3k
views
Removing sex-chromosome probes from methyLumiSet
methylumi eSet illuminahumanmethylation450k.db featureFilter
updated 9.4 years ago by 67k • written 9.4 years ago by • 0
0
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7
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2.4k
views
methyAnalysis error
GO convert methylumi genoset GO convert methylumi genoset
11.0 years ago Juan Fernández Tajes ▴ 190
0
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10
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2.5k
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MethyLumiM to MethyLumiSet?
convert lumi methylumi minfi wateRmelon convert lumi methylumi minfi wateRmelon
updated 11.0 years ago by ★ 4.2k • written 11.1 years ago by ▴ 190
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0
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1.1k
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MethyLumiM to MethyLumiSet?
convert lumi methylumi convert lumi methylumi
11.1 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 11.4 years ago by ★ 6.5k • written 11.4 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 11.4 years ago by ▴ 120 • written 11.4 years ago by 67k
0
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970
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[methylumi] concerning methylumi.bgcorr function and out-of-band intensities
methylumi methylumi
11.6 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
11.6 years ago Guest User ★ 13k
0
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1
reply
1.4k
views
Question on Analyzing Illumina 450k methylation data
methylumi methylumi
11.7 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
11.9 years ago Dylan Aïssi ▴ 30
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1.1k
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Large datasets in methylumi
methylumi methylumi
11.9 years ago Guest User ★ 13k
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1.1k
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methylumi on Infiniium27k idat files
methylumi methylumi
12.5 years ago Briggs, Chris ▴ 20
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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
12.6 years ago Pan Du ▴ 440
0
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1
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1.3k
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qcplot() error in methylumi?
methylumi methylumi
updated 12.7 years ago by ★ 4.2k • written 12.7 years ago by ▴ 10
0
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0
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1.9k
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reading with lumi
Preprocessing PROcess lumi methylumi Preprocessing PROcess lumi methylumi
12.7 years ago Tim Triche ★ 4.2k
0
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2
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3.1k
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convert between MethylLumiSet (methylumi) and RGChannelSet (minfi)
methylumi minfi methylumi minfi
updated 12.8 years ago by ★ 4.2k • written 12.8 years ago by ▴ 170
0
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1
reply
1.3k
views
minfi
methylumi minfi methylumi minfi
updated 12.9 years ago by ★ 6.8k • written 12.9 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
13.0 years ago Shruti Rastogi ▴ 10
0
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3
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1.6k
views
'parallel' vs 'multicore'
methylumi methylumi
updated 13.1 years ago by 25k • written 13.1 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 13.4 years ago by ▴ 620 • written 13.4 years ago by 21k
0
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0
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1.1k
views
Results of QC of Demodata included in the package, HumMeth27QCReport
Normalization lumi methylumi Normalization lumi methylumi
14.0 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 14.1 years ago by 21k • written 14.1 years ago by ▴ 90
0
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2
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1.4k
views
Cy5: methylated or unmethylated?
methylumi methylumi
updated 14.1 years ago by 21k • written 14.1 years ago by ▴ 720
0
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0
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1.1k
views
about normalizeMethyLumiSet
methylumi methylumi
14.2 years ago gregory voisin ▴ 430
0
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1
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1.2k
views
Illumina GoldenGate methylation array, methylumi
limma methylumi limma methylumi
updated 14.3 years ago by ▴ 350 • written 14.3 years ago by ▴ 10
0
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0
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915
views
methylumi: Quality Control
limma methylumi limma methylumi
14.4 years ago Jinyan Huang ▴ 50
0
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0
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1.2k
views
methylumiSet - normalization
methylumi methylumi
14.4 years ago Noemi Andor ▴ 100
0
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2
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1.3k
views
methylumi
Microarray methylumi Microarray methylumi
updated 14.9 years ago by 21k • written 14.9 years ago by ▴ 70
43 results • Page 1 of 1
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Answer: Downloading Metagenomic Data with Higher Taxonomic Units by Levi Waldron ★ 1.1k
I'm sorry I missed the first post! Yes, it is easy to agglomerate ranks in curatedMetagenomicData datasets. See the example in the vignette…
Comment: Differene between the Wald and LRT test for time-series gene expression data by Denise • 0
This makes a lot of sense, thank you very much!
Comment: Downloading Metagenomic Data with Higher Taxonomic Units by elozanoe • 0
Hi! I'm facing the same problem. Is there any easy way to output relative abundances of higher taxonomic units (up to kingdom), similar to…
Comment: Is it recommended to analyze different tissues together when using edgeR by Gordon Smyth 51k
Just plot the samples with plotMDS(). Alternatively you would use `voomLmFit()` with `sample.weights=TRUE` or `var.group=tissue`. In princ…
Comment: Handling Epic Array Data by Melisa Tecik • 0
Thanks a lot for the help. You saved my day
Votes
A: correcting the batch effects in Limma and SVA
A: Using of limma moderated t-test with "corrected" expression matrix resulting fr
A: Using of limma moderated t-test with "corrected" expression matrix resulting fr
Answer: Differene between the Wald and LRT test for time-series gene expression data
Answer: Using voom-transformed counts for unsupervised analyses (PCA, Random Forest, Ela
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