Showing : RnBeads • reset
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719
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save.rnb.set warnings when trying to save rnb.set
RnBeads RnBeads.hg19 MethylationArray
written 8 months ago by • 0
0
votes
3
replies
1.5k
views
Batch correction using control probes in EPIC array data
RnBeads minfiData minfi EPICarray
updated 22 months ago by ▴ 780 • written 22 months ago by ▴ 10
0
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0
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655
views
rnbeads inference
epigenetics RnBeads
2.1 years ago Jitendra ▴ 10
0
votes
0
replies
776
views
normalisation options in RnBeads
Epigenetics RnBeads R Bioconducter
3.0 years ago Jitendra ▴ 10
0
votes
0
replies
971
views
filtering options in RnBeads for array data
Epigenetics RnBeads MethylationArrayData methylationArrayAnalysis
3.0 years ago Jitendra ▴ 10
0
votes
8
replies
2.4k
views
error in RnBeads installation
Epigenetics RnBeads R
3.1 years ago • updated 3.0 years ago Jitendra ▴ 10
1
vote
1
reply
1.1k
views
How to export methylation tracks in bed format
RnBeads
updated 4.0 years ago by 68k • written 4.0 years ago by ▴ 10
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0
replies
1.2k
views
How to know the number of detected CpG islands with RnBeads
RnBeads
4.1 years ago Federica ▴ 10
0
votes
0
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1.4k
views
How to get illumina CpG IDs by gene name?
MethylationArrayData RnBeads
4.1 years ago D ▴ 10
1
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2
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2.5k
views
How to install Ghostscript in windows?
RnBeads.hg19 RnBeads
written 4.1 years ago by ▴ 10
2
votes
4
replies
1.6k
views
How to launch the RnBeads Data Juggler?
RnBeads
4.1 years ago Federica ▴ 10
2
votes
9
replies
2.4k
views
Installation of RnBeads package fails on Ubuntu 18.04.5 LTS
RnBeads
updated 3.4 years ago by • 0 • written 4.3 years ago by • 0
2
votes
6
replies
1.7k
views
RnBeads::combine() - error?
RnBeads Rnbeads2.0 RnBeads2
updated 11 weeks ago by • 0 • written 4.8 years ago by ▴ 10
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0
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1.0k
views
Is rnb.execute.import() has a bug in reading bismarkCytosine formart bed file? coordinates seem to be shifted by 1
RnBeads
5.0 years ago caoy4g4 • 0
0
votes
2
replies
2.3k
views
RnBeads set ghost script environment variable
RnBeads ghostscript
5.4 years ago Kathrin.Klee • 0
1
vote
3
replies
1.6k
views
Obtaining annotated results from rnbeads
rnbeads EPIC
updated 5.8 years ago by ▴ 50 • written 5.8 years ago by ★ 1.1k
0
votes
3
replies
1.4k
views
Trouble creating an RnBeads annotation for rn6 rat genome build
RnBeads rn6 RnBeadsAnnotationCreator
updated 6.1 years ago by ▴ 50 • written 6.1 years ago by • 0
0
votes
1
reply
1.3k
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RnBeads "The analysis directory does not contain RnBSet objects"
rnbeads
6.9 years ago neuro3030 • 0
0
votes
1
reply
1.7k
views
RnBeads data preprocessing error
RnBeads
updated 7.0 years ago by • 0 • written 7.4 years ago by • 0
0
votes
0
replies
1.2k
views
differential methylation analysis with RnBeads
rnbeads methylation methylationepic dna methylation
7.1 years ago gabrielrfries • 0
1
vote
1
reply
1.8k
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
7.4 years ago preethibagopi28 ▴ 10
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0
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1.3k
views
Is it possible to use Rnbeads with WGBS data from epigenetics roadmap/ucsc data
rnbeads wgbs
7.5 years ago Theo ▴ 10
0
votes
2
replies
2.7k
views
how to do noob+funnorm+bmiq normalization together in minfi or RnBeads?
minfi RnBeads noob preprocessFunnorm BMIQ
updated 8.0 years ago by ★ 6.5k • written 8.0 years ago by ▴ 10
0
votes
0
replies
1.2k
views
'type = genes' for RnBeads::meth() function
rnbeads
8.1 years ago Tom ▴ 10
0
votes
0
replies
1.6k
views
Importing Infinium data files using RnBeads::rnb.execute.import()
RnBeads
8.3 years ago Habil Zare ▴ 200
0
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0
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1.2k
views
RnBeads, enrichment analysis
rnbeads
8.4 years ago gaiusjaugustus • 0
0
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0
replies
1.8k
views
Issue with finding .idat files when analysing illumina methylation microarrays using RnBeads
rnbeads methylation illumina epic microarray
8.6 years ago rasii • 0
4
votes
4
replies
3.6k
views
How to remove unwanted probes before normalization in 450k data
minfi 450k champ rnbeads
updated 9.0 years ago by 68k • written 9.1 years ago by ▴ 60
0
votes
2
replies
2.5k
views
error nonzero exit
illuminahumanmethylation450k.db rnbeads
updated 9.1 years ago by • 0 • written 9.6 years ago by • 0
0
votes
2
replies
1.5k
views
RnBeads - save state between data crunching and report generation checkpoints within the differential methylation module?
rnbeads xserver headless-r x11
9.1 years ago areyoujokingme • 0
0
votes
0
replies
2.5k
views
RnBeads check.names error:: "formal argument "check.names" matched by multiple actual arguments"
rnbeads software error
9.3 years ago areyoujokingme • 0
2
votes
7
replies
2.4k
views
ggbio, RnBeads and 3.2.2
ggbio rnbeads rversion3.2.2
9.3 years ago areyoujokingme • 0
0
votes
1
reply
1.7k
views
RnBeads - test statistics for rnb.run.differential
RnBeads
updated 9.4 years ago by • 0 • written 9.4 years ago by ▴ 120
0
votes
1
reply
1.4k
views
RnBeads and technical replicates in differential analysis
rnbeads replicates
updated 9.4 years ago by • 0 • written 9.4 years ago by ▴ 40
0
votes
2
replies
2.1k
views
RnBeads - error with 'rnb.run.differential' module
RnBeads illimina 450k methylation
9.4 years ago Brian Smith ▴ 120
1
vote
9
replies
2.6k
views
RnBeads fails with error in version 1.2 with GRanges v1.22.0
RnBeads
updated 9.4 years ago by • 0 • written 9.4 years ago by • 0
1
vote
1
reply
2.0k
views
RnBeads - doesn't produce pdfs
rnbeads illumina450k
updated 9.4 years ago by ▴ 10 • written 9.4 years ago by ▴ 120
0
votes
2
replies
2.0k
views
rnBeads error for the report path
software error rnbeads
updated 9.5 years ago by ★ 8.2k • written 9.5 years ago by • 0
0
votes
1
reply
2.0k
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
9.6 years ago schasse • 0
0
votes
3
replies
3.4k
views
RnBeads cannot locate libjasper.so.1
rnbeads gs ghostscript shared libraries cluster
9.7 years ago bmreilly • 0
2
votes
4
replies
2.8k
views
Package RnBeads not available for R 3.1.2?
RnBeads packages R 3.1.2
9.7 years ago bmreilly • 0
41 results • Page 1 of 1
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Comment: Improving performance of edgeR and limma while adjusting for multiple confounder by ATpoint ★ 4.8k
If 2 minutes is inacceptable to you then you can still fall back to limma-trend which should give a dramatic speedup and finish in seconds.…
Comment: getBM from biomaRt inconsistencies found with .gtf files across multiple species by Mike Smith ★ 6.6k
Great, thanks for the update from Ensembl. So the most relevant part of 'Location: Scaffold HG1277_PATCH: 137,021-141,806 forward strand' …
Answer: Improving performance of edgeR and limma while adjusting for multiple confounder by Gordon Smyth 52k
We recommend that you use voomLmFit() instead of voom+lmFit. We are pretty proud of the speed of glmQLFit and voom, and we hadn't expected…
Answer: Merging EPICV1 and V2 betas by James W. MacDonald 68k
It appears that [SeSAMe][1] has functions meant to do that sort of thing. [1]: https://bioconductor.org/packages/release/bioc/vignet…
Comment: getBM from biomaRt inconsistencies found with .gtf files across multiple species by Benjamin ▴ 20
I have received a response from Ensembl regarding the items I have listed above. I wanted to post it here and will continue to post update…
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Looking for equivalent EPIC chip v1 vs. v2 annotation variables
Properly constructing a hypergeometric test
A: Is logFC a log2 fold change or some other base in scran::findMarkers
Comment: Error in retrieving clinical data
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