Showing : Minfi • reset
6
votes
5
replies
6.0k
views
minfi support of illumina Infinium methylationEPIC v2.0
methylationEPICv2.0 minfi
updated 6 months ago by ▴ 10 • written 13 months ago by ▴ 50
3
votes
2
replies
465
views
What is the meaning of "CpG interrogation" and "single nucleotide extension(SBE)"?
SBE CpG minfi CpGinterrogation
4 months ago kyj2226 • 0
2
votes
6
replies
1.4k
views
How to get DMR for Infinium methylation EPIC v2
ChAMP DMRcate minfi
updated 5 weeks ago by ▴ 180 • written 5 months ago by ▴ 10
1
vote
4
replies
210
views
minfi::read.metharray.exp
minfiData minfi
updated 13 days ago by ▴ 780 • written 15 days ago by • 0
0
votes
0
replies
263
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Normalization in methylation analysis
Methylation minfi preprocessQuantile MethylationArrayData preprocessFunnorm
4 months ago kyj2226 • 0
0
votes
2
replies
574
views
ageData (minfi pipeline)
ageData missMethyl differentialvariability minfi
updated 6 weeks ago by • 0 • written 11 months ago by • 0
0
votes
14
replies
1.9k
views
Error while preprocessing raw data from methylation array using minfi package
minfi
updated 3 months ago by • 0 • written 8 months ago by • 0
0
votes
3
replies
945
views
Batch correction using control probes in EPIC array data
RnBeads minfiData minfi EPICarray
updated 11 months ago by ▴ 780 • written 11 months ago by ▴ 10
0
votes
3
replies
568
views
minfi bumphunter - probe IDs
minfi bumphunter
updated 7 months ago by ▴ 780 • written 7 months ago by • 0
0
votes
2
replies
1.4k
views
Error processing Infinium 450K Methylation data using Minfi
minfi software error methylation illumina450k
updated 11 months ago by • 0 • written 8.4 years ago by • 0
0
votes
4
replies
248
views
Minfi - estimatecellscount
min minfi
updated 8 days ago by 65k • written 5 weeks ago by • 0
0
votes
0
replies
199
views
Can MethylationEPIC v1 and v2 data be used together for analysis with minfi?
minfi minfiDataEPIC
8 weeks ago Felix • 0
0
votes
1
reply
64
views
minfi latest update for EPIC V2 chip
minfi minfiDataEPIC
updated 17 hours ago by 65k • written 23 hours ago by • 0
0
votes
7
replies
463
views
error in reading idat files and creating rgset
minfi MethylationArray
updated 12 weeks ago by 65k • written 12 weeks ago by • 0
0
votes
5
replies
927
views
minfi, limma, adjusting for cell counts - integrating the resoults of estimateCellCounts into the linear regression model
minfi limma
6 months ago dorota.komar • 0
0
votes
2
replies
667
views
minfi differential methylation analysis errors
minfi
6 months ago matthew.sinton • 0
0
votes
1
reply
182
views
Matrix multiplication error to estimate telomere length
methylclockData minfi methylclock minfidata
updated 9 weeks ago by 65k • written 10 weeks ago by • 0
0
votes
2
replies
548
views
EPIC array hg38 annotation?
minfi DMRcate
12 weeks ago mycetes • 0
0
votes
1
reply
330
views
Error in reading my csv file in minfi
minfiDataEPIC minfi
updated 5 months ago by ▴ 780 • written 5 months ago by • 0
0
votes
11
replies
3.8k
views
bug in cpg.annotate() and DMR.plot: bad defaults for what and arraytype arguments
DMRcate minfi
updated 3 months ago by ▴ 180 • written 7.1 years ago by ★ 2.0k
0
votes
9
replies
3.1k
views
clarification about bumphunter value output
minfi bumphunter
updated 11 months ago by • 0 • written 6.2 years ago by • 0
0
votes
1
reply
400
views
Two EPIC Methylation Array Analysis Questions
minfiDataEPIC minfi
updated 8 months ago by 65k • written 8 months ago by • 0
22 results • Page 1 of 1
Recent ...
Replies
Comment: Cannot connect to ExperimentHub server by Jiayu • 0
Many thanks and it also resolved the same issue for me!
Comment: Help with running egsea() by Chris • 0
I tried egsea.ma and got this error: gsa = egsea.ma(numeric_matrix, vector_group, probe_annotation, contrasts = contrast_matrix, gs.an…
Comment: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by angelathuynh5 • 0
Thank you for your response. To clarify, the process of making a heatmap performs rowscaling so it takes the value - (mean/std). And to res…
Comment: Method to find pathways different between 2 groups by Gordon Smyth 50k
sigPathway is another method that does not account for inter-gene correlation and which gives inflated significance, as we showed in our 20…
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu by James W. MacDonald 65k
I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Answer: Cannot connect to ExperimentHub server
Answer: confused with tximport counts abundance using salmon input
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu
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