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RnBeads
•
reset
0
votes
3
replies
832
views
Batch correction using control probes in EPIC array data
RnBeads
minfiData
minfi
EPICarray
updated 10 months ago by
Basti
▴ 750 • written 10 months ago by
Jitendra
▴ 10
0
votes
0
replies
393
views
rnbeads inference
epigenetics
RnBeads
14 months ago
Jitendra
▴ 10
0
votes
0
replies
534
views
normalisation options in RnBeads
Epigenetics
RnBeads
R
Bioconducter
2.0 years ago
Jitendra
▴ 10
0
votes
0
replies
671
views
filtering options in RnBeads for array data
Epigenetics
RnBeads
MethylationArrayData
methylationArrayAnalysis
2.0 years ago
Jitendra
▴ 10
0
votes
8
replies
1.8k
views
error in RnBeads installation
Epigenetics
RnBeads
R
2.1 years ago • updated 2.0 years ago
Jitendra
▴ 10
2
votes
9
replies
1.8k
views
Installation of RnBeads package fails on Ubuntu 18.04.5 LTS
RnBeads
updated 2.4 years ago by
j6163mls
• 0 • written 3.3 years ago by
vi.hammer
• 0
2
votes
3
replies
1.1k
views
RnBeads::combine() - error?
RnBeads
Rnbeads2.0
RnBeads2
updated 3.0 years ago by
mscherer
▴ 50 • written 3.8 years ago by
D
▴ 10
1
vote
1
reply
816
views
How to export methylation tracks in bed format
RnBeads
updated 3.1 years ago by
James W. MacDonald
65k • written 3.1 years ago by
Federica
▴ 10
0
votes
0
replies
781
views
How to know the number of detected CpG islands with RnBeads
RnBeads
3.1 years ago
Federica
▴ 10
0
votes
0
replies
983
views
How to get illumina CpG IDs by gene name?
MethylationArrayData
RnBeads
3.1 years ago
D
▴ 10
1
vote
2
replies
1.5k
views
How to install Ghostscript in windows?
RnBeads.hg19
RnBeads
written 3.1 years ago by
Federica
▴ 10
2
votes
4
replies
1.2k
views
How to launch the RnBeads Data Juggler?
RnBeads
3.1 years ago
Federica
▴ 10
0
votes
0
replies
762
views
Is rnb.execute.import() has a bug in reading bismarkCytosine formart bed file? coordinates seem to be shifted by 1
RnBeads
4.0 years ago
caoy4g4
• 0
0
votes
2
replies
1.8k
views
RnBeads set ghost script environment variable
RnBeads
ghostscript
4.4 years ago
Kathrin.Klee
• 0
1
vote
3
replies
1.2k
views
Obtaining annotated results from rnbeads
rnbeads
EPIC
updated 4.8 years ago by
mscherer
▴ 50 • written 4.8 years ago by
Mark Dunning
★ 1.1k
0
votes
3
replies
1.1k
views
Trouble creating an RnBeads annotation for rn6 rat genome build
RnBeads
rn6
RnBeadsAnnotationCreator
updated 5.1 years ago by
mscherer
▴ 50 • written 5.1 years ago by
richardjacton
• 0
0
votes
1
reply
1.1k
views
RnBeads "The analysis directory does not contain RnBSet objects"
rnbeads
5.9 years ago
neuro3030
• 0
0
votes
1
reply
1.3k
views
RnBeads data preprocessing error
RnBeads
updated 6.0 years ago by
mlyall
• 0 • written 6.4 years ago by
Clyndas
• 0
0
votes
0
replies
1.0k
views
differential methylation analysis with RnBeads
rnbeads
methylation
methylationepic
dna methylation
6.1 years ago
gabrielrfries
• 0
1
vote
1
reply
1.4k
views
Error in Rnbeads:Error in logger.error(em) : Could not create file. cannot popen '/usr/bin/which 'gs' 2>/dev/null', probable reason 'Cannot alloca…
R
bioconductor
rnbeads
microarray
illimina 450k methylation
6.4 years ago
preethibagopi28
▴ 10
0
votes
0
replies
1.1k
views
Is it possible to use Rnbeads with WGBS data from epigenetics roadmap/ucsc data
rnbeads
wgbs
6.5 years ago
Theo
• 0
0
votes
2
replies
2.1k
views
how to do noob+funnorm+bmiq normalization together in minfi or RnBeads?
minfi
RnBeads
noob
preprocessFunnorm
BMIQ
updated 7.0 years ago by
Kasper Daniel Hansen
★ 6.5k • written 7.0 years ago by
rahel14350
▴ 10
0
votes
0
replies
1.0k
views
'type = genes' for RnBeads::meth() function
rnbeads
7.1 years ago
Tom
▴ 10
0
votes
0
replies
1.3k
views
Importing Infinium data files using RnBeads::rnb.execute.import()
RnBeads
7.3 years ago
Habil Zare
▴ 200
0
votes
0
replies
1.0k
views
RnBeads, enrichment analysis
rnbeads
7.4 years ago
gaiusjaugustus
• 0
0
votes
0
replies
1.5k
views
Issue with finding .idat files when analysing illumina methylation microarrays using RnBeads
rnbeads
methylation
illumina
epic microarray
7.6 years ago
rasii
• 0
4
votes
4
replies
2.9k
views
How to remove unwanted probes before normalization in 450k data
minfi
450k
champ
rnbeads
updated 8.0 years ago by
James W. MacDonald
65k • written 8.1 years ago by
AST
▴ 60
0
votes
2
replies
2.2k
views
error nonzero exit
illuminahumanmethylation450k.db
rnbeads
updated 8.1 years ago by
katwre
• 0 • written 8.6 years ago by
caroline.gluck
• 0
0
votes
2
replies
1.3k
views
RnBeads - save state between data crunching and report generation checkpoints within the differential methylation module?
rnbeads
xserver
headless-r
x11
8.1 years ago
areyoujokingme
• 0
0
votes
0
replies
2.2k
views
RnBeads check.names error:: "formal argument "check.names" matched by multiple actual arguments"
rnbeads
software error
8.3 years ago
areyoujokingme
• 0
2
votes
7
replies
2.1k
views
ggbio, RnBeads and 3.2.2
ggbio
rnbeads
rversion3.2.2
8.3 years ago
areyoujokingme
• 0
0
votes
1
reply
1.4k
views
RnBeads - test statistics for rnb.run.differential
RnBeads
updated 8.4 years ago by
rnbeads
• 0 • written 8.4 years ago by
Brian Smith
▴ 120
0
votes
1
reply
1.2k
views
RnBeads and technical replicates in differential analysis
rnbeads
replicates
updated 8.4 years ago by
rnbeads
• 0 • written 8.4 years ago by
Jon Manning
▴ 40
0
votes
2
replies
1.8k
views
RnBeads - error with 'rnb.run.differential' module
RnBeads
illimina 450k methylation
8.4 years ago
Brian Smith
▴ 120
1
vote
9
replies
2.1k
views
RnBeads fails with error in version 1.2 with GRanges v1.22.0
RnBeads
updated 8.4 years ago by
rnbeads
• 0 • written 8.4 years ago by
berger
• 0
1
vote
1
reply
1.7k
views
RnBeads - doesn't produce pdfs
rnbeads
illumina450k
updated 8.4 years ago by
pavlo.lutsik
▴ 10 • written 8.4 years ago by
Brian Smith
▴ 120
0
votes
2
replies
1.7k
views
rnBeads error for the report path
software error
rnbeads
updated 8.5 years ago by
Dan Tenenbaum
★ 8.2k • written 8.5 years ago by
brenna.hott
• 0
0
votes
1
reply
1.7k
views
RnBeads: Error in as.list.default(data.source) : no method for coercing this S4 class to a vector
rnbeads
error
as.vector(data)
s4vectors
s4
8.6 years ago
schasse
• 0
0
votes
3
replies
3.0k
views
RnBeads cannot locate libjasper.so.1
rnbeads
gs
ghostscript
shared libraries
cluster
8.7 years ago
bmreilly
• 0
2
votes
4
replies
2.3k
views
Package RnBeads not available for R 3.1.2?
RnBeads
packages
R 3.1.2
8.7 years ago
bmreilly
• 0
40 results • Page
1 of 1
Recent ...
Replies
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…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Comment: DEG Filtering
by
Gordon Smyth
50k
I already know that you using CEL files because you need them to perform RMA normalization. Yes, you should follow the advice I have alread…
Votes
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
Answer: error in ChAMP loading file
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