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illuminaio
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5
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5
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2.2k
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Normalization of IDAT files from Illumina HumanMethylation450 BeadChip without .bgx file
IlluminaHumanMethylation450BeadChip
illuminaio
normalize450K
23 months ago
Sarah
• 0
2
votes
4
replies
1.2k
views
How to get methylation data in count data format from "Infinium MethylationEPIC BeadChips (Illumina)" idat files
methylationArrayAnalysis
illuminaio
beadarray
DSS
bsseqData
2.1 years ago
Jojo
• 0
0
votes
2
replies
997
views
Question about Illuminaio
illuminaio
illumina human ht-12 v4
gene expression
micorarray
updated 6.0 years ago by
Mike Smith
★ 6.5k • written 6.0 years ago by
makoouji
• 0
0
votes
2
replies
1.3k
views
IlluminaHumanMethylationEPIC array nSNPsRead and MethylSet probes
illuminaio
illuminahumanmethylationepicmanifest
minfi
updated 6.2 years ago by
Kasper Daniel Hansen
★ 6.5k • written 6.2 years ago by
Giovanni Calice
▴ 160
0
votes
1
reply
1.8k
views
bug limma / illuminaio? Otherwise small feature request...
limma
illuminaio
idat
gzip
updated 6.9 years ago by
Matthew Ritchie
▴ 1000 • written 6.9 years ago by
Guido Hooiveld
★ 3.9k
1
vote
5
replies
2.8k
views
Error with read.idat() function in illuminaio package
illuminaio
normalization
updated 6.9 years ago by
Matthew Ritchie
▴ 1000 • written 8.7 years ago by
Stephen Piccolo
▴ 590
1
vote
2
replies
1.1k
views
read.idat and empty Symbols
illuminaio
limma
7.3 years ago • updated 3.4 years ago
h.mon
• 0
1
vote
2
replies
1.6k
views
Problem reading EPIC array data: different bead locations on different EPIC Chips
minfi
illuminaio
epic
7.7 years ago
m.van_iterson
▴ 20
1
vote
2
replies
2.0k
views
Further analysis of methylation microarrays data (Illumina - idat) after reading by illuminaio package
limma
lumi
illuminaio
illimina 450k methylation
microarray
8.0 years ago
Adam
• 0
4
votes
10
replies
2.1k
views
Zero values for bead backgrounds (reading idat files using Illuminaio)
illuminaio
idat
beadarray
updated 8.5 years ago by
Mike Smith
★ 6.5k • written 8.6 years ago by
willj
▴ 30
1
vote
4
replies
2.5k
views
read.idat manifest error
limma
illuminaio
illumina human WG6v2
updated 8.8 years ago by
Matthew Ritchie
▴ 1000 • written 8.8 years ago by
Gabriel Nathan Kaufman, Mr
▴ 60
0
votes
10
replies
2.1k
views
Error when using readIDAT() from illuminaio
illuminaio
idat
9.1 years ago
lacion
• 0
0
votes
1
reply
2.2k
views
Reading IDAT files with illuminaio
SNP
illuminaio
SNP
illuminaio
updated 10.3 years ago by
Kasper Daniel Hansen
★ 6.5k • written 10.3 years ago by
Mike Smith
★ 6.5k
0
votes
0
replies
1.7k
views
Illumina Expression analysis from iDAT files
Normalization
limma
beadarray
lumi
illuminaio
Normalization
limma
beadarray
lumi
10.3 years ago
Kasper Daniel Hansen
★ 6.5k
3
votes
9
replies
5.6k
views
Illumina Expression analysis from iDAT files
beadarray
lumi
illuminaio
idat
updated 2.3 years ago by
Gordon Smyth
50k • written 10.3 years ago by
Sean Davis
21k
15 results • Page
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Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
by
Michael Love
41k
May be documented by the software you are using? https://github.com/lpantano/DEGreport
Answer: Doing comparison of RNA-seq data using Deseq2
by
Michael Love
41k
Take a look at our workflow, this starts from a beginner's level. You could export from Excel using CSV or TSV, then read into R. htt…
Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Votes
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
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