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Methylumi
•
reset
0
votes
7
replies
2.2k
views
methyAnalysis error
GO
convert
methylumi
genoset
GO
convert
methylumi
genoset
10.5 years ago
Juan Fernández Tajes
▴ 190
0
votes
10
replies
2.2k
views
MethyLumiM to MethyLumiSet?
convert
lumi
methylumi
minfi
wateRmelon
convert
lumi
methylumi
minfi
wateRmelon
updated 10.5 years ago by
Tim Triche
★ 4.2k • written 10.5 years ago by
Martin Rijlaarsdam
▴ 190
1
vote
10
replies
3.0k
views
minfi, lumi, methylumi, DMRcate installation error
minfi
lumi
methylumi
dmrcate
illuminahumanmethylation450kanno.ilmn12.hg19
updated 7.1 years ago by
Tim Peters
▴ 170 • written 7.1 years ago by
poojitha.stemcell
▴ 10
1
vote
2
replies
1.5k
views
lumi package fails to load because of a missing dependency (bumphunter)
lumi
methylumi
updated 5.5 years ago by
lhuang7
▴ 50 • written 5.5 years ago by
kaur.alasoo
▴ 30
0
votes
5
replies
2.0k
views
Is it possible to convert Methylumi object into RGChannelSet
microarray
minfi
methylumi
illumina450k
7.5 years ago • updated 6.6 years ago
poojitha.stemcell
▴ 10
1
vote
1
reply
1.2k
views
Filtering by bead count
methylumi
updated 8.2 years ago by
Mike Smith
★ 6.5k • written 8.2 years ago by
khadeeja ismail
▴ 400
0
votes
2
replies
1.4k
views
Error while using BMIQ normalisation on a methylumiSet
limma
watermelon
methylumi
bmiq
updated 7.4 years ago by
tgorri
▴ 10 • written 7.4 years ago by
poojitha.stemcell
▴ 10
0
votes
2
replies
2.9k
views
convert between MethylLumiSet (methylumi) and RGChannelSet (minfi)
methylumi
minfi
methylumi
minfi
updated 12.2 years ago by
Tim Triche
★ 4.2k • written 12.2 years ago by
Aaron Mackey
▴ 170
0
votes
3
replies
1.7k
views
Data from GEO in Methylumi
methylumi
methylumi
updated 13.6 years ago by
Sean Davis
21k • written 13.6 years ago by
S T
▴ 90
1
vote
1
reply
958
views
Subsetting samples and columns of a MethyLumiSet subsets QC probes
methylumi
updated 6.5 years ago by
Sean Davis
21k • written 6.5 years ago by
alan.ocallaghan
▴ 160
0
votes
1
reply
1.2k
views
qcplot() error in methylumi?
methylumi
methylumi
updated 12.1 years ago by
Tim Triche
★ 4.2k • written 12.1 years ago by
Oliver Lyttleton
▴ 10
1
vote
1
reply
727
views
Valid to normalise MethylumiSet using minfi?
normalization
minfi
methylumi
updated 5.1 years ago by
James W. MacDonald
65k • written 5.1 years ago by
Pem
• 0
0
votes
1
reply
1.1k
views
Illumina GoldenGate methylation array, methylumi
limma
methylumi
limma
methylumi
updated 13.7 years ago by
Davis, Wade
▴ 350 • written 13.8 years ago by
Jinyan Huang
▴ 10
0
votes
2
replies
1.1k
views
memory problem
Normalization
lumi
methylumi
Normalization
lumi
methylumi
updated 12.9 years ago by
Ina Hoeschele
▴ 620 • written 12.9 years ago by
Sean Davis
21k
0
votes
2
replies
1.2k
views
methylumi
Microarray
methylumi
Microarray
methylumi
updated 14.3 years ago by
Sean Davis
21k • written 14.3 years ago by
Paul Sanfilippo
▴ 70
0
votes
1
reply
1.3k
views
Question on Analyzing Illumina 450k methylation data
methylumi
methylumi
11.2 years ago
Srinivas Srikanth
▴ 70
0
votes
3
replies
1.5k
views
'parallel' vs 'multicore'
methylumi
methylumi
updated 12.6 years ago by
Martin Morgan
25k • written 12.6 years ago by
Tim Triche
★ 4.2k
0
votes
1
reply
1.4k
views
problem with 'FDb.InfiniumMethylation.hg19'
BSgenome
BSgenome
lumi
methylumi
BSgenome
BSgenome
lumi
methylumi
updated 10.8 years ago by
VSM
▴ 120 • written 10.8 years ago by
James W. MacDonald
65k
0
votes
2
replies
1.3k
views
Cy5: methylated or unmethylated?
methylumi
methylumi
updated 13.6 years ago by
Sean Davis
21k • written 13.6 years ago by
Shi, Tao
▴ 720
0
votes
2
replies
2.3k
views
Disparity between MethylLumiSet (methylumi) and RGChannelSet (minfi) - treatment of missing values
probe
methylumi
probe
methylumi
updated 10.8 years ago by
Kasper Daniel Hansen
★ 6.5k • written 10.8 years ago by
Pilling, Luke
▴ 20
0
votes
1
reply
1.2k
views
minfi
methylumi
minfi
methylumi
minfi
updated 12.4 years ago by
Valerie Obenchain
★ 6.8k • written 12.4 years ago by
khadeeja ismail
▴ 400
0
votes
6
replies
3.9k
views
Removing sex-chromosome probes from methyLumiSet
methylumi
eSet
illuminahumanmethylation450k.db
featureFilter
updated 8.9 years ago by
James W. MacDonald
65k • written 8.9 years ago by
martens.christopher
• 0
4
votes
10
replies
4.4k
views
Illumina MethylationEPIC vs. 450K
methylumi
minfi
illuminahumanmethylation450k.db
450k
methyanalysis
updated 8.2 years ago by
Peter Hickey
▴ 740 • written 8.2 years ago by
Ahdee
▴ 50
1
vote
1
reply
618
views
Problems installing methylumi package
methylumi
updated 17 months ago by
Mike Smith
★ 6.5k • written 17 months ago by
Alison
• 0
0
votes
0
replies
1.1k
views
methylumiSet - normalization
methylumi
methylumi
13.9 years ago
Noemi Andor
▴ 100
0
votes
0
replies
833
views
methylumi: Quality Control
limma
methylumi
limma
methylumi
13.8 years ago
Jinyan Huang
▴ 50
0
votes
0
replies
980
views
about normalizeMethyLumiSet
methylumi
methylumi
13.7 years ago
gregory voisin
▴ 430
0
votes
0
replies
971
views
Results of QC of Demodata included in the package, HumMeth27QCReport
Normalization
lumi
methylumi
Normalization
lumi
methylumi
13.4 years ago
Francesco Mancuso
▴ 40
0
votes
0
replies
1.8k
views
reading with lumi
Preprocessing
PROcess
lumi
methylumi
Preprocessing
PROcess
lumi
methylumi
12.2 years ago
Tim Triche
★ 4.2k
0
votes
0
replies
1.1k
views
Error in doing QC for 450K IlluminaHumanMeth data using methylumi
methylumi
methylumi
12.5 years ago
Shruti Rastogi
▴ 10
0
votes
0
replies
1.0k
views
methylumi on Infiniium27k idat files
methylumi
methylumi
11.9 years ago
Briggs, Chris
▴ 20
0
votes
0
replies
981
views
Bioconductor Digest, Vol 110, Issue 11
Normalization
Cancer
lumi
methylumi
Normalization
Cancer
lumi
methylumi
12.1 years ago
Pan Du
▴ 440
0
votes
0
replies
1.0k
views
Large datasets in methylumi
methylumi
methylumi
11.4 years ago
Guest User
★ 13k
0
votes
0
replies
945
views
[methylumi] concerning methylumi.bgcorr function and out-of-band intensities
methylumi
methylumi
11.3 years ago
Dylan Aïssi
▴ 30
0
votes
0
replies
1.9k
views
how to use MethyLumiM object in BMIQ(wateRmelon)
lumi
methylumi
lumi
methylumi
11.1 years ago
Guest User
★ 13k
0
votes
0
replies
856
views
[methylumi] concerning methylumi.bgcorr function and out-of-band intensities
methylumi
methylumi
11.1 years ago
Hannah Elliott
▴ 10
0
votes
0
replies
978
views
MethyLumiM to MethyLumiSet?
convert
lumi
methylumi
convert
lumi
methylumi
10.5 years ago
Allegra Petti
▴ 120
0
votes
0
replies
1.3k
views
how to use Methylumi background correction (noob) in CHAMP
Methylumi
NOOB
CHAMP
Background corection
illimina 450k methylation
7.1 years ago
rahel14350
▴ 10
0
votes
0
replies
1.3k
views
Can't get the lumi and methylumi packages to work.
lumi
methylumi
7.0 years ago
gitteba
• 0
2
votes
4
replies
2.6k
views
Problem in installing Bioconductor packages due to "IRanges"
lumi
methylumi
methyAnalysis
6.3 years ago
topijush
▴ 10
0
votes
0
replies
702
views
Error when trying to read in idat files in methylumi
methylumi
450k
methylation
methylome
4.3 years ago
A
▴ 40
0
votes
2
replies
1.0k
views
Convert MethyLumiSet into RGChannelSet (Illumina EPIC methylation data)
methylumi
minfi
microarray
epic
4.0 years ago • updated 3.5 years ago
Nala
• 0
0
votes
1
reply
1.5k
views
MethylSet to MethyLumiSet
minfi
methylumi
watermelon
7.2 years ago
Tom
▴ 10
43 results • Page
1 of 1
Recent ...
Replies
Comment: Differences in differential analysis methods for RNA-Seq
by
ATpoint
★ 4.1k
> I am just re-processing due to being uncertain about how they used the edgeR analysis to reach gene level edgeR devs published something…
Comment: Differences in differential analysis methods for RNA-Seq
by
james.zhang20
• 0
Thanks for the explanations, it has helped clarify some things. Unfortunately, I am working from an early access public dataset (https://do…
Answer: Deseq2 and Normalization of RNA sequencing data
by
ATpoint
★ 4.1k
There is no expectation of normality that is realistic in terms of expression level. Levels are widely different between genes, and counts …
Comment: Differences in differential analysis methods for RNA-Seq
by
ATpoint
★ 4.1k
MAGeCK is a command line tool that is easy to use. I recommend you use it because a) the logFCs from DESeq2 and MAGeCK will be very similar…
Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
by
Yveto
• 0
Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
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