Showing : rnbeads • reset
0
votes
3
replies
919
views
Batch correction using control probes in EPIC array data
RnBeads minfiData minfi EPICarray
updated 11 months ago by ▴ 780 • written 11 months ago by ▴ 10
0
votes
0
replies
420
views
rnbeads inference
epigenetics RnBeads
15 months ago Jitendra ▴ 10
0
votes
0
replies
562
views
normalisation options in RnBeads
Epigenetics RnBeads R Bioconducter
2.1 years ago Jitendra ▴ 10
0
votes
0
replies
709
views
filtering options in RnBeads for array data
Epigenetics RnBeads MethylationArrayData methylationArrayAnalysis
2.1 years ago Jitendra ▴ 10
0
votes
8
replies
1.9k
views
error in RnBeads installation
Epigenetics RnBeads R
2.1 years ago Jitendra ▴ 10
1
vote
1
reply
846
views
How to export methylation tracks in bed format
RnBeads
updated 3.1 years ago by 65k • written 3.1 years ago by ▴ 10
0
votes
0
replies
812
views
How to know the number of detected CpG islands with RnBeads
RnBeads
3.1 years ago Federica ▴ 10
0
votes
0
replies
1.0k
views
How to get illumina CpG IDs by gene name?
MethylationArrayData RnBeads
3.2 years ago D ▴ 10
1
vote
2
replies
1.5k
views
How to install Ghostscript in windows?
RnBeads.hg19 RnBeads
written 3.2 years ago by ▴ 10
2
votes
4
replies
1.2k
views
How to launch the RnBeads Data Juggler?
RnBeads
3.2 years ago Federica ▴ 10
2
votes
9
replies
1.9k
views
Installation of RnBeads package fails on Ubuntu 18.04.5 LTS
RnBeads
updated 2.5 years ago by • 0 • written 3.4 years ago by • 0
2
votes
3
replies
1.1k
views
RnBeads::combine() - error?
RnBeads Rnbeads2.0 RnBeads2
updated 3.1 years ago by ▴ 50 • written 3.9 years ago by ▴ 10
0
votes
0
replies
786
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
1.9k
views
RnBeads set ghost script environment variable
RnBeads ghostscript
4.5 years ago Kathrin.Klee • 0
1
vote
3
replies
1.2k
views
Obtaining annotated results from rnbeads
rnbeads EPIC
updated 4.9 years ago by ▴ 50 • written 4.9 years ago by ★ 1.1k
0
votes
3
replies
1.1k
views
Trouble creating an RnBeads annotation for rn6 rat genome build
RnBeads rn6 RnBeadsAnnotationCreator
updated 5.2 years ago by ▴ 50 • written 5.2 years ago by • 0
0
votes
1
reply
1.1k
views
RnBeads "The analysis directory does not contain RnBSet objects"
rnbeads
6.0 years ago neuro3030 • 0
0
votes
1
reply
1.4k
views
RnBeads data preprocessing error
RnBeads
updated 6.1 years ago by • 0 • written 6.5 years ago by • 0
0
votes
0
replies
1.0k
views
differential methylation analysis with RnBeads
rnbeads methylation methylationepic dna methylation
6.2 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
6.5 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
6.6 years ago Theo ▴ 10
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 7.1 years ago by ★ 6.5k • written 7.1 years ago by ▴ 10
0
votes
0
replies
1.0k
views
'type = genes' for RnBeads::meth() function
rnbeads
7.2 years ago Tom ▴ 10
0
votes
0
replies
1.3k
views
Importing Infinium data files using RnBeads::rnb.execute.import()
RnBeads
7.4 years ago Habil Zare ▴ 200
0
votes
0
replies
1.0k
views
RnBeads, enrichment analysis
rnbeads
7.5 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
7.7 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 8.1 years ago by 65k • written 8.1 years ago by ▴ 60
0
votes
2
replies
2.3k
views
error nonzero exit
illuminahumanmethylation450k.db rnbeads
updated 8.2 years ago by • 0 • written 8.7 years ago by • 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
8.2 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
8.4 years ago areyoujokingme • 0
2
votes
7
replies
2.1k
views
ggbio, RnBeads and 3.2.2
ggbio rnbeads rversion3.2.2
8.4 years ago areyoujokingme • 0
0
votes
1
reply
1.5k
views
RnBeads - test statistics for rnb.run.differential
RnBeads
updated 8.4 years ago by • 0 • written 8.5 years ago by ▴ 120
0
votes
1
reply
1.2k
views
RnBeads and technical replicates in differential analysis
rnbeads replicates
updated 8.4 years ago by • 0 • written 8.5 years ago by ▴ 40
0
votes
2
replies
1.9k
views
RnBeads - error with 'rnb.run.differential' module
RnBeads illimina 450k methylation
8.5 years ago Brian Smith ▴ 120
1
vote
9
replies
2.2k
views
RnBeads fails with error in version 1.2 with GRanges v1.22.0
RnBeads
updated 8.5 years ago by • 0 • written 8.5 years ago by • 0
1
vote
1
reply
1.7k
views
RnBeads - doesn't produce pdfs
rnbeads illumina450k
updated 8.5 years ago by ▴ 10 • written 8.5 years ago by ▴ 120
0
votes
2
replies
1.7k
views
rnBeads error for the report path
software error rnbeads
updated 8.6 years ago by ★ 8.2k • written 8.6 years ago by • 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
8.8 years ago bmreilly • 0
2
votes
4
replies
2.4k
views
Package RnBeads not available for R 3.1.2?
RnBeads packages R 3.1.2
8.8 years ago bmreilly • 0
40 results • Page 1 of 1
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Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Votes
Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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