Showing : Epic • reset
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627
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combat for batch effect correction in EPIC array data
Epigenetics combat EPIC
20 months ago Jitendra ▴ 10
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2
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1.2k
views
Convert MethyLumiSet into RGChannelSet (Illumina EPIC methylation data)
methylumi minfi microarray epic
4.6 years ago • updated 4.0 years ago Nala • 0
2
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1
reply
1.2k
views
lumi: Importing Methylation EPIC IDAT files
lumi EPIC Methylation
4.5 years ago Zach Roe ▴ 10
1
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1
reply
1.1k
views
SVA paired samples
SVA EPIC methylation limma
updated 4.7 years ago by 67k • written 4.7 years ago by • 0
1
vote
3
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1.6k
views
Skewed beta-distribution from Methylation EPIC array data
ChAMP EPIC Illumina Methylation
4.8 years ago erwin.tomasich ▴ 10
1
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1
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948
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Issue with ChAMP DMP.GUI
ChAMP champ methylation EPIC
updated 4.8 years ago by ▴ 90 • written 4.8 years ago by • 0
2
votes
16
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3.1k
views
Methylation EPIC array: ChAMP package-champ.load added probes?
methylation epic champ champ.load() Methylation array
updated 4.8 years ago by ▴ 290 • written 4.8 years ago by ▴ 20
3
votes
5
replies
1.6k
views
DMRcate: Cpgids in DMR
methylation Epic annotation DMRcate
updated 5.1 years ago by 67k • written 5.1 years ago by ▴ 10
0
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4
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1.9k
views
WGCNA soft threshold with methylation data but no scale-free topology
methylation EPIC scale-free topology WGCNA
updated 22 months ago by • 0 • written 5.2 years ago by • 0
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1
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2.2k
views
How to analyse 450k and EPIC methylation data together?
minfi 450k EPIC analysis
updated 5.2 years ago by 67k • written 5.2 years ago by • 0
0
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3
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1.4k
views
Limma for cell components effect on response
450k EPIC minfi limma cell components
updated 5.3 years ago by ★ 28k • written 5.3 years ago by • 0
1
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3
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1.5k
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Obtaining annotated results from rnbeads
rnbeads EPIC
updated 5.4 years ago by ▴ 50 • written 5.4 years ago by ★ 1.1k
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0
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1.3k
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Beta values and M values cluster differently
methylationEPIC minfi microarray epigenetics EPIC
5.7 years ago rmf ▴ 20
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0
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931
views
Best normalisation method
microarray methylationEPIC epigenetics minfi EPIC
5.7 years ago rmf ▴ 20
2
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1
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1.5k
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EPIC methylation array - analysis with ChAMP - how to export bed/wig file to view in UCSC/IGV?
methylation epic champ
updated 6.0 years ago by ▴ 290 • written 6.0 years ago by ▴ 10
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2
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2.3k
views
ChAMP Normalization on EPIC Methylation Data
ChAMP Normalization FunctionalNormalization methylation EPIC
6.1 years ago yuabrahamliu • 0
5
votes
9
replies
2.0k
views
limma Multi-level Experiments correcting for continuous covariates
limma epic methylation limma design matrix covariates
updated 6.2 years ago by ★ 28k • written 6.2 years ago by • 0
0
votes
0
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1.1k
views
missMethyl EPIC manifest update
missmethyl epic illuminahumanmethylationepicanno.ilm10b4.hg19. ruv
6.2 years ago peter.fransquet • 0
0
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3
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1.8k
views
Minfi error when using force=TRUE in read.metharray
minfi methylation epic
6.2 years ago jbar3141 • 0
0
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0
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1.2k
views
Interpretation of control strip and beta density plots for Illumina methylation array data using minFi
minfi methylation EPIC
6.3 years ago sichan • 0
2
votes
3
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2.5k
views
"Seems your IDAT file not from one Array"
EPIC methylation ChAMP
updated 6.6 years ago by ▴ 30 • written 6.6 years ago by • 0
0
votes
2
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2.2k
views
Illumina methylationEPIC demo data in IDAT format?
methylation illumina EPIC methylationepic idat
updated 7.5 years ago by ★ 4.1k • written 7.5 years ago by • 0
1
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3
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1.7k
views
coef in dmrcate
dmrcate bumphunter methylation epic
updated 7.6 years ago by 67k • written 7.6 years ago by ▴ 10
0
votes
3
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2.3k
views
Unknown annotation in the RGChannelSetExtended object
minfi idat annotation EPIC
updated 7.7 years ago by • 0 • written 7.7 years ago by ▴ 20
0
votes
5
replies
2.5k
views
Different errors when attempting to normalize using wateRmelon (v1.1.18)
wateRmelon methylation EPIC normalization
7.8 years ago Wade Davis ▴ 60
0
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0
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1.6k
views
News: ChAMP2 is online
epigenetics EPIC 450K ChAMP News
8.1 years ago Yuan Tian ▴ 90
0
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1
reply
2.2k
views
News: Bug in ChAMP package champ.SVD() function
champ methylation 450k SVD EPIC News
8.2 years ago Yuan Tian ▴ 90
1
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2
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1.8k
views
Problem reading EPIC array data: different bead locations on different EPIC Chips
minfi illuminaio epic
8.4 years ago m.van_iterson ▴ 20
0
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2
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1.4k
views
error using EPIC early access version arrays with minfi
epic minfi read.metharray software error
8.4 years ago mcastrod • 0
29 results • Page 1 of 1
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Comment: ESTMATE, MCPcounter, EPIC, xCell input by Kang • 0
These are not, as far as I know, bioconductor packages. You should query on the websites for those specific software programs. @[mapquest][…
Comment: Robust way of dealing with low number of samples for Differential Gene Expressio by Kang • 0
I believe that pseudo-bulking is a strong way to approach DE, as long as it is possible to reliably identify the cell type across data and …
Comment: GOstats kegg analysis in wheat - help - none of the objects in the first column by GV Yoshikawa • 0
Thank you for the reply. I tried swapping columns before asking, it made no difference. head(keggframeData) path_id kegg…
Answer: Differential Expression Analysis with unbalanced batches without replication bet by Gordon Smyth 51k
> Is there an alternative model or approach in tools like edgeR, limma-voom, or DESeq2 or any other that can handle confounded batch effect…
Comment: BiomaRt Possible Ensembl SSL connectivity problems detected. by Adam • 0
I just found this workaround: httr::set_config(config(ssl_verifypeer = FALSE, ssl_verifyhost = FALSE)) at [this Stack Overflow link][…
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A: Up/Down Regulated GeneList from edgeR and R
A: Up/Down Regulated GeneList from edgeR and R
A: Down/Up-regulated genes asymmetry in edgeR differential expression analysis
Answer: Combining RNAseq and microarray data using edgeR/limma-voom
Answer: How do I merge a list of GRanges?
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