Showing : illimina 450k methylation • reset
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Generation of QSEA TCGA 450K Human Methylation Calibration Dataset
illimina 450k methylation qsea MEDIPS TCGA
updated 13 months ago by ▴ 220 • written 4.5 years ago by ▴ 20
1
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3
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541
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Merge column to SummarizedExperiment from other dataframe
summarizedexperiment rangedsummarizedexperiment illimina 450k methylation
2.9 years ago s.w.vanderlaan ▴ 30
0
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5
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844
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DNA methylation analysis without raw data IDAT files
r illimina 450k methylation minfi champ tcga
updated 3.1 years ago by ▴ 240 • written 3.1 years ago by ▴ 50
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1
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664
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Error in Rnbeads:Error in logger.error(em) : Could not create file. cannot popen '/usr/bin/which 'gs' 2>/dev/null', probable reason 'Cannot alloca…
R bioconductor rnbeads microarray illimina 450k methylation
3.9 years ago preethibagopi28 ▴ 10
1
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1
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676
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Beta Value Analysis - DNA Methylation Dataset
dna methylation illimina 450k methylation beta M significance
updated 4.0 years ago by 58k • written 4.0 years ago by • 0
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0
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626
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Error when using Champ.SVD() function
champ champs.svd() 450K illimina 450k methylation champ 2.8.9
4.0 years ago david.ch • 0
0
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0
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663
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how to use Methylumi background correction (noob) in CHAMP
Methylumi NOOB CHAMP Background corection illimina 450k methylation
4.5 years ago rahel14350 ▴ 10
0
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1
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1.1k
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Epigenetic clock (Horvath): package?
methylation illimina 450k methylation epigenetics minfi
updated 4.5 years ago by ▴ 60 • written 4.6 years ago by ▴ 120
0
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1
reply
638
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effective tools, methylation data
illimina 450k methylation bioconductor
updated 4.6 years ago by 58k • written 4.6 years ago by • 0
0
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0
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521
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Problem annotating with COHCAP 1.16.0 in MacOsX
illimina 450k methylation RNA-seq COHCAP
4.7 years ago IOM ▴ 20
0
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0
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503
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Replicates need for methylation analysis using minfi
minfi methylation illimina 450k methylation
5.0 years ago arisarkar88 • 0
4
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3
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1.1k
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Discrepanices between minifi dmp finder and lmfit
illimina 450k methylation minfi limma
5.2 years ago Andreas Paul • 0
0
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2
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544
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Common probes between 27K and 450 chip
illimina 450k methylation
5.2 years ago Adrian Johnson ▴ 330
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2
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1.3k
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Further analysis of methylation microarrays data (Illumina - idat) after reading by illuminaio package
limma lumi illuminaio illimina 450k methylation microarray
5.5 years ago Adam • 0
0
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4
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804
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minfi sample limit
minfi illumina illimina 450k methylation methylation
updated 5.5 years ago by 6.5k • written 5.5 years ago by ▴ 40
0
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2
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1.2k
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RnBeads - error with 'rnb.run.differential' module
RnBeads illimina 450k methylation
5.9 years ago Brian Smith ▴ 120
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13
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1.1k
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MethylAid package visualize function not opening a web browser
illimina 450k methylation methyanalysis methylaid
6.0 years ago jdangelo • 0
2
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2
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1.7k
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Illumina 450k Annotation Definitions/Articles: How was "Enhancer" status determined?
probe annotation illimina 450k methylation minfi methylation
6.2 years ago maden.sean ▴ 10
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3
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DMRcate: incorporating covariates to find DMRs in methylation data?
limma illimina 450k methylation DMRcate
updated 6.4 years ago by ▴ 120 • written 6.5 years ago by ▴ 120
19 results • Page 1 of 1
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Comment: Volcano plots of DEGs from Swish are weird by Qin ▴ 10
Thans for your reply. I'm sorry for reply so late, because I didn't getting any messages in my email. I will read details of the vignette.
Comment: At least one covariate is confounded with batch! Please remove confounded covari by NewBioInfo • 0
Thank you, James. I was indeed using the wrong matrix. The `nonExtimable` did give me the column name which was causing the issue but I do …
Comment: Returning to edgeR version 3.26.1? by Gordon Smyth 43k
I don't think that any changes to edgeR between 3.26.1 and 3.26.8 could have caused the changes that you show.
Comment: Returning to edgeR version 3.26.1? by mvanhorn • 0
Thank you very much for your reply! Our project is a reanalysis of large sets of RNA-seq data to identify circular RNAs using the CIRIquan…
Comment: "full model matrix is less than full rank" by ATpoint ▴ 840
My best guess is that young and old are not "young" or "old" but include some hidden whitespaces like " young" or "old ". That would then m…
Votes
simultaneous use of robust and weighting methods in limma
simultaneous use of robust and weighting methods in limma
Answer: Swish direction of comparison based on order of factors
Comment: Gradient dotplot
Answer: EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on indi
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