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Showing :
rnbeads
•
reset
0
votes
0
replies
69
views
rnbeads inference
epigenetics
RnBeads
7 weeks ago
Jitendra
▴ 10
0
votes
0
replies
259
views
normalisation options in RnBeads
Epigenetics
RnBeads
R
Bioconducter
11 months ago
Jitendra
▴ 10
0
votes
0
replies
311
views
filtering options in RnBeads for array data
Epigenetics
RnBeads
MethylationArrayData
methylationArrayAnalysis
11 months ago
Jitendra
▴ 10
0
votes
8
replies
882
views
error in RnBeads installation
Epigenetics
RnBeads
R
12 months ago
Jitendra
▴ 10
1
vote
1
reply
464
views
How to export methylation tracks in bed format
RnBeads
updated 2.0 years ago by
James W. MacDonald
62k • written 2.0 years ago by
Federica
▴ 10
0
votes
0
replies
440
views
How to know the number of detected CpG islands with RnBeads
RnBeads
2.0 years ago
Federica
▴ 10
0
votes
0
replies
527
views
How to get illumina CpG IDs by gene name?
MethylationArrayData
RnBeads
2.0 years ago
D
• 0
1
vote
2
replies
984
views
How to install Ghostscript in windows?
RnBeads.hg19
RnBeads
written 2.1 years ago by
Federica
▴ 10
2
votes
4
replies
778
views
How to launch the RnBeads Data Juggler?
RnBeads
2.1 years ago
Federica
▴ 10
2
votes
9
replies
1.3k
views
Installation of RnBeads package fails on Ubuntu 18.04.5 LTS
RnBeads
updated 17 months ago by
j6163mls
• 0 • written 2.3 years ago by
vi.hammer
• 0
2
votes
3
replies
702
views
RnBeads::combine() - error?
RnBeads
Rnbeads2.0
RnBeads2
updated 23 months ago by
mscherer
▴ 50 • written 2.8 years ago by
D
• 0
0
votes
0
replies
408
views
Is rnb.execute.import() has a bug in reading bismarkCytosine formart bed file? coordinates seem to be shifted by 1
RnBeads
2.9 years ago
caoy4g4
• 0
0
votes
2
replies
1.3k
views
RnBeads set ghost script environment variable
RnBeads
ghostscript
3.4 years ago
Kathrin.Klee
• 0
1
vote
3
replies
750
views
Obtaining annotated results from rnbeads
rnbeads
EPIC
updated 3.8 years ago by
mscherer
▴ 50 • written 3.8 years ago by
Mark Dunning
★ 1.1k
0
votes
3
replies
712
views
Trouble creating an RnBeads annotation for rn6 rat genome build
RnBeads
rn6
RnBeadsAnnotationCreator
updated 4.1 years ago by
mscherer
▴ 50 • written 4.1 years ago by
richardjacton
• 0
0
votes
1
reply
796
views
RnBeads "The analysis directory does not contain RnBSet objects"
rnbeads
4.9 years ago
neuro3030
• 0
0
votes
1
reply
955
views
RnBeads data preprocessing error
RnBeads
updated 5.0 years ago by
mlyall
• 0 • written 5.4 years ago by
Clyndas
• 0
0
votes
0
replies
713
views
differential methylation analysis with RnBeads
rnbeads
methylation
methylationepic
dna methylation
5.1 years ago
gabrielrfries
• 0
1
vote
1
reply
996
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
5.4 years ago
preethibagopi28
▴ 10
0
votes
0
replies
716
views
Is it possible to use Rnbeads with WGBS data from epigenetics roadmap/ucsc data
rnbeads
wgbs
5.5 years ago
theodore.georgomanolis
• 0
0
votes
2
replies
1.7k
views
how to do noob+funnorm+bmiq normalization together in minfi or RnBeads?
minfi
RnBeads
noob
preprocessFunnorm
BMIQ
updated 6.0 years ago by
Kasper Daniel Hansen
6.5k • written 6.0 years ago by
rahel14350
▴ 10
0
votes
0
replies
792
views
'type = genes' for RnBeads::meth() function
rnbeads
6.1 years ago
Tom
▴ 10
0
votes
0
replies
1.0k
views
Importing Infinium data files using RnBeads::rnb.execute.import()
RnBeads
6.3 years ago
Habil Zare
▴ 170
0
votes
0
replies
795
views
RnBeads, enrichment analysis
rnbeads
6.4 years ago
gaiusjaugustus
• 0
0
votes
0
replies
1.1k
views
Issue with finding .idat files when analysing illumina methylation microarrays using RnBeads
rnbeads
methylation
illumina
epic microarray
6.6 years ago
rasii
• 0
4
votes
4
replies
2.3k
views
How to remove unwanted probes before normalization in 450k data
minfi
450k
champ
rnbeads
updated 7.0 years ago by
James W. MacDonald
62k • written 7.0 years ago by
AST
▴ 60
0
votes
2
replies
1.9k
views
error nonzero exit
illuminahumanmethylation450k.db
rnbeads
updated 7.1 years ago by
katwre
• 0 • written 7.6 years ago by
caroline.gluck
• 0
0
votes
2
replies
959
views
RnBeads - save state between data crunching and report generation checkpoints within the differential methylation module?
rnbeads
xserver
headless-r
x11
7.1 years ago
areyoujokingme
• 0
0
votes
0
replies
1.8k
views
RnBeads check.names error:: "formal argument "check.names" matched by multiple actual arguments"
rnbeads
software error
7.3 years ago
areyoujokingme
• 0
2
votes
7
replies
1.7k
views
ggbio, RnBeads and 3.2.2
ggbio
rnbeads
rversion3.2.2
7.3 years ago
areyoujokingme
• 0
0
votes
1
reply
1.2k
views
RnBeads - test statistics for rnb.run.differential
RnBeads
updated 7.3 years ago by
rnbeads
• 0 • written 7.4 years ago by
Brian Smith
▴ 120
0
votes
1
reply
930
views
RnBeads and technical replicates in differential analysis
rnbeads
replicates
updated 7.3 years ago by
rnbeads
• 0 • written 7.4 years ago by
Jon Manning
▴ 40
0
votes
2
replies
1.5k
views
RnBeads - error with 'rnb.run.differential' module
RnBeads
illimina 450k methylation
7.4 years ago
Brian Smith
▴ 120
1
vote
9
replies
1.7k
views
RnBeads fails with error in version 1.2 with GRanges v1.22.0
RnBeads
updated 7.4 years ago by
rnbeads
• 0 • written 7.4 years ago by
berger
• 0
1
vote
1
reply
1.4k
views
RnBeads - doesn't produce pdfs
rnbeads
illumina450k
updated 7.4 years ago by
pavlo.lutsik
▴ 10 • written 7.4 years ago by
Brian Smith
▴ 120
0
votes
2
replies
1.3k
views
rnBeads error for the report path
software error
rnbeads
updated 7.5 years ago by
Dan Tenenbaum
★ 8.2k • written 7.5 years ago by
brenna.hott
• 0
0
votes
1
reply
1.4k
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
7.5 years ago
schasse
• 0
0
votes
3
replies
2.6k
views
RnBeads cannot locate libjasper.so.1
rnbeads
gs
ghostscript
shared libraries
cluster
7.7 years ago
bmreilly
• 0
2
votes
4
replies
1.8k
views
Package RnBeads not available for R 3.1.2?
RnBeads
packages
R 3.1.2
7.7 years ago
bmreilly
• 0
39 results • Page
1 of 1
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Replies
Answer: [limma::kegga] Pathway names all NA
by
Gordon Smyth
47k
This is due to a change in the KEGG website. I updated limma a month ago to fix the problem, so just reinstall limma and the problem will b…
Comment: Does DiffBind make consensus peaks sets for samples from a given condition (e.g.
by
tahir.msajid
• 0
That's great. Thank you for clarifying the confusion. Cheers,
Comment: minfi support of illumina Infinium methylationEPIC v2.0
by
luca.s
▴ 40
Tank you James. All fine, but for preprocessIllumina, which apparently won't work
Comment: Time-course, comparison of two groups
by
boczniak767
▴ 720
As an exercise I've tried to analyze simpler but similar experiment. The data is from real experiment (E-MTAB-11224) comparing wild type an…
Answer: How to getting synonymous SNPs from BiomaRt before timing out?
by
James W. MacDonald
62k
Asking for multiple things at once will tend to blow out your results, as you will get every possible combination. ``` > options(timeou…
Votes
Answer: minfi support of illumina Infinium methylationEPIC v2.0
Answer: Are polynomial contrasts for a time factor possible in DESeq2?
Are polynomial contrasts for a time factor possible in DESeq2?
Answer: How to deal with the negative values from EBPlusPlusAdjustPANCAN_IlluminaHiSeq_R
Comment: TxDB.Hsapiens.UCSC.hg38.knownGene with locateVariants() identifying SNPs from va
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