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illumina450k
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1.4k
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Error processing Infinium 450K Methylation data using Minfi
minfi
software error
methylation
illumina450k
updated 11 months ago by
kuzn.di
• 0 • written 8.3 years ago by
pm2015
• 0
0
votes
5
replies
2.0k
views
Is it possible to convert Methylumi object into RGChannelSet
microarray
minfi
methylumi
illumina450k
7.4 years ago • updated 6.6 years ago
poojitha.stemcell
▴ 10
1
vote
3
replies
1.4k
views
Minfi returning incorrect beta values
minfi
illumina
illumina450k
methylation
R
6.8 years ago
ezrabekele17
• 0
0
votes
1
reply
1.5k
views
Error while using ChAMP
champ
methylation
illuminahumanmethylation450k.db
illumina450k
updated 7.4 years ago by
Yuan Tian
▴ 90 • written 7.4 years ago by
hrishi27n
▴ 20
4
votes
8
replies
1.8k
views
Limma for paired and unpaired analysis with adjustment for categorical and continuous variables
limma
illumina450k
lmfit
updated 7.5 years ago by
Ryan C. Thompson
★ 7.9k • written 7.5 years ago by
DSP
• 0
0
votes
0
replies
913
views
Creating a GenomicRatioSet with non minfi normalized data
minfi
methylation
illumina450k
7.5 years ago
hrishi27n
▴ 20
0
votes
4
replies
2.2k
views
Error with Minfi while using read.metharray.exp() and read.metharray function
minfi
illumina450k
methylation
7.5 years ago
hrishi27n
▴ 20
0
votes
4
replies
1.8k
views
ComBat: Adjustment for 3experimental variables
ENmix
combat.mc
illumina450k
combat sva
7.8 years ago
DSP
• 0
0
votes
1
reply
1.1k
views
error when using bumphunter package with illumina 450k data
minfi
bumphunter
DNA methylation
illumina450k
updated 7.9 years ago by
James W. MacDonald
65k • written 7.9 years ago by
fleur_p90
• 0
0
votes
0
replies
1.3k
views
ChAMP ComBat step error: Error in if (min(beta.c) == 0) { : missing value where TRUE/FALSE needed
ChAMP
methylation
illumina450k
8.0 years ago
Daniel E. Weeks
▴ 30
0
votes
0
replies
801
views
illumina HM 450 data
illumina450k
methylation
8.0 years ago
niutster
• 0
0
votes
6
replies
3.2k
views
Analyzing pre/post (longitudinal) data using limma/lme4 with adjustment for continuous covariates
illumina450k
limma
lme4
lmer
updated 8.0 years ago by
Aaron Lun
★ 28k • written 8.0 years ago by
DSP
• 0
0
votes
0
replies
1.1k
views
Error processing Infinium 450K Methylation data using Minfi
minfi
software error
methylation
illumina450k
8.3 years ago
pm2015
• 0
1
vote
1
reply
1.7k
views
RnBeads - doesn't produce pdfs
rnbeads
illumina450k
updated 8.5 years ago by
pavlo.lutsik
▴ 10 • written 8.5 years ago by
Brian Smith
▴ 120
14 results • Page
1 of 1
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Replies
Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR)
by
Michael Love
41k
> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …
Comment: Trying to use enrichGO
by
fernanda.backsouza
▴ 10
With all my love, thank you Guido, GOxploreR beeing a big ally for me. I don't know how to be grateful right now.
Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.
Answer: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
swbarnes2
★ 1.3k
Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…
Comment: get BM error
by
James W. MacDonald
65k
I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…
Votes
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
C: when to apply quantile normalization with voom in limma/voom framework with RNA-
A: How to know if I should use voomWithQualityWeights() or not?
A: Weird results (ribosomal proteins / Y-linked genes) in limma/voom
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