Showing : methylumi • reset
1
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871
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Problems installing methylumi package
methylumi
updated 2.2 years ago by ★ 6.6k • written 2.2 years ago by • 0
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1.3k
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Convert MethyLumiSet into RGChannelSet (Illumina EPIC methylation data)
methylumi minfi microarray epic
4.8 years ago • updated 4.3 years ago Nala • 0
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0
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914
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Error when trying to read in idat files in methylumi
methylumi 450k methylation methylome
5.1 years ago A ▴ 40
1
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894
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Valid to normalise MethylumiSet using minfi?
normalization minfi methylumi
updated 5.9 years ago by 67k • written 5.9 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 6.2 years ago by ▴ 50 • written 6.2 years ago by ▴ 30
2
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4
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3.1k
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Problem in installing Bioconductor packages due to "IRanges"
lumi methylumi methyAnalysis
7.1 years ago topijush ▴ 10
1
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1
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1.2k
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Subsetting samples and columns of a MethyLumiSet subsets QC probes
methylumi
updated 7.3 years ago by 21k • written 7.3 years ago by ▴ 160
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5
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2.5k
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Is it possible to convert Methylumi object into RGChannelSet
microarray minfi methylumi illumina450k
8.2 years ago • updated 7.3 years ago poojitha.stemcell ▴ 10
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1.5k
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Can't get the lumi and methylumi packages to work.
lumi methylumi
7.7 years ago gitteba • 0
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1.5k
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how to use Methylumi background correction (noob) in CHAMP
Methylumi NOOB CHAMP Background corection illimina 450k methylation
7.8 years ago rahel14350 ▴ 10
1
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10
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3.5k
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minfi, lumi, methylumi, DMRcate installation error
minfi lumi methylumi dmrcate illuminahumanmethylation450kanno.ilmn12.hg19
updated 7.9 years ago by ▴ 200 • written 7.9 years ago by ▴ 10
0
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1.7k
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MethylSet to MethyLumiSet
minfi methylumi watermelon
8.0 years ago Tom ▴ 10
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2
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1.7k
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Error while using BMIQ normalisation on a methylumiSet
limma watermelon methylumi bmiq
updated 8.1 years ago by ▴ 10 • written 8.1 years ago by ▴ 10
1
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1
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1.5k
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Filtering by bead count
methylumi
updated 8.9 years ago by ★ 6.6k • written 8.9 years ago by ▴ 400
4
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10
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5.0k
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Illumina MethylationEPIC vs. 450K
methylumi minfi illuminahumanmethylation450k.db 450k methyanalysis
updated 8.9 years ago by ▴ 750 • written 8.9 years ago by ▴ 50
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6
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4.4k
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Removing sex-chromosome probes from methyLumiSet
methylumi eSet illuminahumanmethylation450k.db featureFilter
updated 9.6 years ago by 67k • written 9.6 years ago by • 0
0
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7
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2.5k
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methyAnalysis error
GO convert methylumi genoset GO convert methylumi genoset
11.2 years ago Juan Fernández Tajes ▴ 190
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10
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2.6k
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MethyLumiM to MethyLumiSet?
convert lumi methylumi minfi wateRmelon convert lumi methylumi minfi wateRmelon
updated 11.3 years ago by ★ 4.2k • written 11.3 years ago by ▴ 190
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1.1k
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MethyLumiM to MethyLumiSet?
convert lumi methylumi convert lumi methylumi
11.3 years ago Allegra Petti ▴ 120
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2
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2.5k
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Disparity between MethylLumiSet (methylumi) and RGChannelSet (minfi) - treatment of missing values
probe methylumi probe methylumi
updated 11.6 years ago by ★ 6.5k • written 11.6 years ago by ▴ 20
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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 11.6 years ago by ▴ 120 • written 11.6 years ago by 67k
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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 Hannah Elliott ▴ 10
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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
11.8 years ago Guest User ★ 13k
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1
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1.5k
views
Question on Analyzing Illumina 450k methylation data
methylumi methylumi
11.9 years ago Srinivas Srikanth ▴ 70
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1.1k
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[methylumi] concerning methylumi.bgcorr function and out-of-band intensities
methylumi methylumi
12.1 years ago Dylan Aïssi ▴ 30
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1.2k
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Large datasets in methylumi
methylumi methylumi
12.2 years ago Guest User ★ 13k
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1.1k
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methylumi on Infiniium27k idat files
methylumi methylumi
12.7 years ago Briggs, Chris ▴ 20
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1.2k
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Bioconductor Digest, Vol 110, Issue 11
Normalization Cancer lumi methylumi Normalization Cancer lumi methylumi
12.8 years ago Pan Du ▴ 440
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1
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1.3k
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qcplot() error in methylumi?
methylumi methylumi
updated 12.9 years ago by ★ 4.2k • written 12.9 years ago by ▴ 10
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1.9k
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reading with lumi
Preprocessing PROcess lumi methylumi Preprocessing PROcess lumi methylumi
12.9 years ago Tim Triche ★ 4.2k
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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 13.0 years ago by ★ 4.2k • written 13.0 years ago by ▴ 170
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1
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1.4k
views
minfi
methylumi minfi methylumi minfi
updated 13.1 years ago by ★ 6.8k • written 13.1 years ago by ▴ 400
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0
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1.2k
views
Error in doing QC for 450K IlluminaHumanMeth data using methylumi
methylumi methylumi
13.2 years ago Shruti Rastogi ▴ 10
0
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3
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1.7k
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'parallel' vs 'multicore'
methylumi methylumi
updated 13.3 years ago by 25k • written 13.3 years ago by ★ 4.2k
0
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2
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1.3k
views
memory problem
Normalization lumi methylumi Normalization lumi methylumi
updated 13.6 years ago by ▴ 620 • written 13.6 years ago by 21k
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1.1k
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Results of QC of Demodata included in the package, HumMeth27QCReport
Normalization lumi methylumi Normalization lumi methylumi
14.2 years ago Francesco Mancuso ▴ 40
0
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3
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1.9k
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Data from GEO in Methylumi
methylumi methylumi
updated 14.3 years ago by 21k • written 14.3 years ago by ▴ 90
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2
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1.4k
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Cy5: methylated or unmethylated?
methylumi methylumi
updated 14.3 years ago by 21k • written 14.3 years ago by ▴ 720
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0
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1.1k
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about normalizeMethyLumiSet
methylumi methylumi
14.5 years ago gregory voisin ▴ 430
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1
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1.3k
views
Illumina GoldenGate methylation array, methylumi
limma methylumi limma methylumi
updated 14.5 years ago by ▴ 350 • written 14.5 years ago by ▴ 10
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940
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methylumi: Quality Control
limma methylumi limma methylumi
14.6 years ago Jinyan Huang ▴ 50
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0
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1.2k
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methylumiSet - normalization
methylumi methylumi
14.6 years ago Noemi Andor ▴ 100
0
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2
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1.4k
views
methylumi
Microarray methylumi Microarray methylumi
updated 15.1 years ago by 21k • written 15.1 years ago by ▴ 70
43 results • Page 1 of 1
Recent ...
Replies
Comment: Is there a way to do DEG analysis across two batches sharing one sample only? by kahunroleh • 0
Yes, you can perform DEG analysis across two batches with one shared sample by using batch correction methods like ComBat or limma. These t…
Comment: displaying the differential expression with deseq2 over 4X2 samples with the in by Martijn • 0
thanks James, but if I do pairwise analyses per subject, I get the impression that I only get the intercepts per gene. Do you mean regardin…
Comment: plyranges: find exact GRanges match keeping metadata columns by alexis.weinreb • 0
Thank you, this does clarify the available options.
Answer: displaying the differential expression with deseq2 over 4X2 samples with the in by James W. MacDonald 67k
If you have paired data you should block on subject, which is algebraically the same as fitting a model on the difference between treated a…
Answer: How to compare expression levels of genes between scRNAseq and bulkRNAseq? by jodan • 0
Your approach sounds solid! You might also consider plotting a scatter plot comparing log2 fold changes from both datasets to identify gene…
Votes
Answer: Find exact GRanges match keeping metadata columns
Answer: Find exact GRanges match keeping metadata columns
Answer: Unused arguments error without used arguments in GSVA?
Answer: Unused arguments error without used arguments in GSVA?
Answer: Unused arguments error without used arguments in GSVA?
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