Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
Methylation
•
reset
0
votes
7
replies
3.0k
views
Is anyone able to explain the statistics behind the dmpFinder function in minfi package?
minfi
methylation
dmpfinder
limma
updated 6.9 years ago by
vulegom
• 0 • written 7.6 years ago by
mcall
▴ 20
0
votes
5
replies
2.2k
views
Different errors when attempting to normalize using wateRmelon (v1.1.18)
wateRmelon
methylation
EPIC
normalization
7.3 years ago
Wade Davis
▴ 60
3
votes
15
replies
4.4k
views
Installing MethylationEPIC minifest and annotation
minfi
methylation
illuminahumanmethylationepicmanifest
illumina
8.0 years ago
rasii
• 0
2
votes
11
replies
9.1k
views
Minfi error in reading Basename column
methylation
minfi
updated 7.5 years ago by
SplittingInfinity
▴ 60 • written 8.6 years ago by
parap
• 0
1
vote
4
replies
1.4k
views
M3D package in Bioconductor 3.4
bioconductor
methylation
updated 7.4 years ago by
Dimitris Polychronopoulos
▴ 80 • written 7.4 years ago by
francescacairoli
• 0
0
votes
4
replies
896
views
Fix regions for bumphunter
bumphunter
DMR
methylation
minfi
4.2 years ago
i.s.brorson
• 0
0
votes
2
replies
2.6k
views
Illumina 450k Manifest: Probes Mapping to Multiple RefGene Groups and Names
illuminahumanmethylation450kanno.ilmn12.hg19
minfi
illuminahumanmethylation450k.db
methylation
updated 24 months ago by
Will
• 0 • written 8.6 years ago by
metamaden
▴ 10
2
votes
2
replies
2.5k
views
Illumina 450k Annotation Definitions/Articles: How was "Enhancer" status determined?
probe
annotation
illimina 450k methylation
minfi
methylation
8.8 years ago
metamaden
▴ 10
2
votes
3
replies
2.1k
views
"Seems your IDAT file not from one Array"
EPIC
methylation
ChAMP
updated 6.0 years ago by
yura.grabovska
▴ 30 • written 6.0 years ago by
david.ch
• 0
0
votes
4
replies
1.5k
views
WGCNA soft threshold with methylation data but no scale-free topology
methylation
EPIC
scale-free topology
WGCNA
updated 15 months ago by
shuo
• 0 • written 4.6 years ago by
enora.fremy
• 0
1
vote
9
replies
3.6k
views
strange results from differential methylation analysis using limma
limma
methylation
methyanalysis
IMA
updated 23 months ago by
Sean Davis
21k • written 7.1 years ago by
RC
• 0
0
votes
6
replies
1.4k
views
How to link methylation code from UCSC (hg19-cg07790169) to ENSEMBL genome code (goseq procedure)
goseq
methylation
ensembl
ucsc
limma
6.2 years ago • updated 6.1 years ago
dusan.petrovic
• 0
4
votes
4
replies
1.2k
views
Illumina Methylation 27k minfi
microarray
methylation
illumina27k
minfi
updated 5.1 years ago by
Kasper Daniel Hansen
★ 6.5k • written 5.1 years ago by
laurenz.holcik
• 0
0
votes
2
replies
1.7k
views
BSseq package for Targeted DNA bisulfite sequencing for DMR analysis
methylation
DMR analysis
9.1 years ago
parker
• 0
0
votes
4
replies
1.9k
views
Aclust package: IlluminaHumanMethylation450kCHR37 not found
illuminahumanmethylation450k.db
aclust
methylation
annotation
illumina
updated 7.6 years ago by
b2cemaillist
• 0 • written 7.7 years ago by
aagata.szymanek
• 0
1
vote
3
replies
1.3k
views
Error in the UcscTrack() in package "Gviz"
DMR
Methylation
R
Gviz
updated 5 months ago by
Robert Ivanek
▴ 730 • written 3.0 years ago by
ltzhou
• 0
0
votes
2
replies
2.0k
views
Error using Bumphunter and Block finder using CHAMP
champ
methylation
450k
7.4 years ago
hrishi27n
▴ 20
6
votes
14
replies
4.7k
views
How to correctly import Bismark coverage files into bsseq?
bsseq
bismark
methylation
8.4 years ago
enricoferrero
▴ 660
2
votes
2
replies
1.4k
views
dmrseq: cannot adjust for a covariate
dmrseq
dmr
dmrs
bisulfite
methylation
updated 6.2 years ago by
keegan
▴ 60 • written 6.2 years ago by
l.kremer
• 0
1
vote
9
replies
2.6k
views
bumphunter beta values
methylation
minfi
bumphunter
updated 8.0 years ago by
James W. MacDonald
65k • written 8.0 years ago by
igor
▴ 40
0
votes
1
reply
1.7k
views
How to convert GenomicRatioSet to RGChannelSet in minfi::compartments()
minfi
estimateCellCounts
methylation
updated 6.9 years ago by
Kasper Daniel Hansen
★ 6.5k • written 6.9 years ago by
stewart999
▴ 10
0
votes
4
replies
1.6k
views
minfi sample limit
minfi
illumina
illimina 450k methylation
methylation
updated 8.1 years ago by
Kasper Daniel Hansen
★ 6.5k • written 8.1 years ago by
igor
▴ 40
3
votes
1
reply
1.2k
views
Limma -decideTests interpretation for M-values
limma
decidetests
methylation
updated 8.1 years ago by
Sean Davis
21k • written 8.1 years ago by
kraiczy
▴ 10
1
vote
5
replies
2.8k
views
About methylation data processing
methylation
updated 8.2 years ago by
Peter Hickey
▴ 740 • written 8.2 years ago by
Asma rabe
▴ 290
0
votes
3
replies
1.7k
views
SVA package for RRBS - bisulfite methylation data
rrbs
batch effect
methylation
sva
updated 7.5 years ago by
dashbrook1
• 0 • written 8.7 years ago by
GFM
▴ 20
4
votes
8
replies
3.7k
views
minfi MethylationEPIC errors
minfi
methylation
IlluminaHumanMethylationEPICmanifest
IlluminaHumanMethylationEPICanno.ilmn10b.hg19
updated 8.1 years ago by
Kasper Daniel Hansen
★ 6.5k • written 8.1 years ago by
igor
▴ 40
2
votes
2
replies
1.3k
views
Package for iScan methylation data
methylation
iscan
9.5 years ago
Brian Smith
▴ 120
1
vote
2
replies
1.5k
views
DMRcate results file ordered by genomic location and not Stouffer p-val?
DMRcate
dmrcate
methylation
updated 6.9 years ago by
Tim Peters
▴ 170 • written 6.9 years ago by
Ellen O
• 0
0
votes
1
reply
1.5k
views
Error in Matrix
minfi
methylation
EPIC microarray
illumina
updated 8.0 years ago by
Kasper Daniel Hansen
★ 6.5k • written 8.0 years ago by
rasii
• 0
0
votes
2
replies
1.8k
views
Reading IDAT files from Illumina HumanMethylation450 BeadChip with beadarray
beadarray
illumina
methylation
microarray
updated 8.5 years ago by
Sean Davis
21k • written 8.5 years ago by
maria.keays
• 0
1
vote
3
replies
1.5k
views
coef in dmrcate
dmrcate
bumphunter
methylation
epic
updated 7.0 years ago by
James W. MacDonald
65k • written 7.0 years ago by
yoursbassanio
▴ 10
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
kuzn.di
• 0 • written 8.3 years ago by
pm2015
• 0
0
votes
2
replies
1.4k
views
should i include PCs or MDSs as covariates in methylation study?
limma
methylation
R
covariate
MDS
updated 7.0 years ago by
Aaron Lun
★ 28k • written 7.0 years ago by
RC
• 0
0
votes
4
replies
1.6k
views
minfi "mapToGenome" dimension error
methylation
epic microarray
minfi
methylationepic
7.1 years ago
nhejazi
• 0
0
votes
1
reply
1.7k
views
illumina 450k methylation: Cell composition for saliva
methylation
minfi
illuminahumanmethylation450k.db
saliva
cell composition
updated 9.0 years ago by
Kasper Daniel Hansen
★ 6.5k • written 9.1 years ago by
Brian Smith
▴ 120
0
votes
1
reply
1.2k
views
champ.load getting filtered RGChannelSet
champ
methylation
updated 7.1 years ago by
Yuan Tian
▴ 90 • written 7.2 years ago by
hrishi27n
▴ 20
0
votes
2
replies
1.9k
views
Illumina methylationEPIC demo data in IDAT format?
methylation
illumina
EPIC
methylationepic
idat
updated 6.9 years ago by
Guido Hooiveld
★ 3.9k • written 6.9 years ago by
Ellen O
• 0
14
votes
12
replies
9.2k
views
limma lmFit coefficients and p-values
limma
methylation
ewas
updated 7.7 years ago by
Steve Lianoglou
★ 13k • written 7.7 years ago by
CPR
▴ 30
4
votes
4
replies
3.0k
views
bumphunter output clarification: p values achieved with b=1000: further correction needed?
methylation
dmr analysis
bumphunter
updated 7.3 years ago by
James W. MacDonald
65k • written 7.3 years ago by
chelsey.ju
• 0
1
vote
1
reply
1.2k
views
Not getting Adjusted p-values from multtest package
multtest
methylation
adjusted pvalue
updated 8.4 years ago by
kpollard
▴ 110 • written 8.4 years ago by
elhananby
▴ 10
1
vote
2
replies
1.5k
views
minfi package QC report error?
minfi
methylation
illumina
9.5 years ago
Brian Smith
▴ 120
0
votes
1
reply
1.9k
views
News:
Bug in ChAMP package champ.SVD() function
champ
methylation
450k
SVD
EPIC
News
7.6 years ago
Yuan Tian
▴ 90
0
votes
3
replies
1.3k
views
BiSeq. Model beta regression on resampled data.
biseq
methylation
dmr analysis
updated 7.3 years ago by
Katja Hebestreit
▴ 130 • written 7.3 years ago by
jjalmagro
• 0
1
vote
8
replies
3.3k
views
Normalization starting from beta values in minfi
methylation
minfi
written 7.9 years ago by
Asma rabe
▴ 290
0
votes
4
replies
2.1k
views
Error with Minfi while using read.metharray.exp() and read.metharray function
minfi
illumina450k
methylation
7.4 years ago
hrishi27n
▴ 20
3
votes
1
reply
1.2k
views
two 450K methylation array manifests. where is the difference?
methylation
450k
8.2 years ago
Pablo marin-garcia
▴ 90
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
0
votes
2
replies
1.1k
views
Methylation and gene expression data
methylation
geneexpression
updated 7.9 years ago by
arfranco
▴ 130 • written 7.9 years ago by
Asma rabe
▴ 290
1
vote
5
replies
1.3k
views
Understanding methyAnalysis Results
methyAnalysis
methyanalysis
methylation
illuminahumanmethylation450k.db
updated 9.1 years ago by
Pan Du
▴ 80 • written 9.1 years ago by
andrew.j.skelton73
▴ 370
1
vote
2
replies
2.5k
views
BS-seq differential methylation analysis using continuous variable
dmr
methylation
deseq2
bsseq
biseq
updated 8.5 years ago by
Kasper Daniel Hansen
★ 6.5k • written 8.5 years ago by
enricoferrero
▴ 660
50 results • Page
1 of 1
Recent ...
Replies
Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param
by
russ.bainer
▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
by
Chris
• 0
Hi Robert, If I don't want to use all pathway in c2 gene set but only a few pathways of interested, how can I do that? So we try to get a …
Comment: How to retrieve detailed regression results from deseq2
by
Weiqian
▴ 10
Hi Michael, thanks for the answer! I'll have a look : )
Comment: DESeq filtering specific to contrasts
by
Michael Love
41k
It will likely not filter it out, but really the per-dataset details would affect the results.
Comment: DESeq filtering specific to contrasts
by
Carlin95
• 0
Thanks for clarifying. Could I ask maybe one more thing for my sanity? Let's say you had a multi-factor experiment with contrasts including…
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
Awards
• All
Popular Question
to
James W. MacDonald
65k
Popular Question
to
shepherl
3.8k
Popular Question
to
BioinfGuru
▴ 30
Popular Question
to
Gordon Smyth
50k
Scholar
to
Peter Hickey
▴ 740
Locations
• All
France,
just now
WEHI, Melbourne, Australia,
7 minutes ago
United States,
13 minutes ago
Ireland,
20 minutes ago
India,
25 minutes ago
Traffic: 680 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6