Showing : RnBeads • reset
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603
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save.rnb.set warnings when trying to save rnb.set
RnBeads RnBeads.hg19 MethylationArray
written 5 months ago by • 0
0
votes
3
replies
1.4k
views
Batch correction using control probes in EPIC array data
RnBeads minfiData minfi EPICarray
updated 19 months ago by ▴ 780 • written 19 months ago by ▴ 10
0
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0
replies
597
views
rnbeads inference
epigenetics RnBeads
23 months ago Jitendra ▴ 10
0
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0
replies
732
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normalisation options in RnBeads
Epigenetics RnBeads R Bioconducter
2.7 years ago Jitendra ▴ 10
0
votes
0
replies
914
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filtering options in RnBeads for array data
Epigenetics RnBeads MethylationArrayData methylationArrayAnalysis
2.7 years ago Jitendra ▴ 10
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8
replies
2.2k
views
error in RnBeads installation
Epigenetics RnBeads R
2.8 years ago Jitendra ▴ 10
1
vote
1
reply
1.1k
views
How to export methylation tracks in bed format
RnBeads
updated 3.8 years ago by 67k • written 3.8 years ago by ▴ 10
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0
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1.1k
views
How to know the number of detected CpG islands with RnBeads
RnBeads
3.8 years ago Federica ▴ 10
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votes
0
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1.3k
views
How to get illumina CpG IDs by gene name?
MethylationArrayData RnBeads
3.8 years ago D ▴ 10
1
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2
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2.1k
views
How to install Ghostscript in windows?
RnBeads.hg19 RnBeads
written 3.8 years ago by ▴ 10
2
votes
4
replies
1.5k
views
How to launch the RnBeads Data Juggler?
RnBeads
3.8 years ago Federica ▴ 10
2
votes
9
replies
2.2k
views
Installation of RnBeads package fails on Ubuntu 18.04.5 LTS
RnBeads
updated 3.2 years ago by • 0 • written 4.1 years ago by • 0
2
votes
3
replies
1.4k
views
RnBeads::combine() - error?
RnBeads Rnbeads2.0 RnBeads2
updated 3.7 years ago by ▴ 50 • written 4.5 years ago by ▴ 10
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votes
0
replies
959
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Is rnb.execute.import() has a bug in reading bismarkCytosine formart bed file? coordinates seem to be shifted by 1
RnBeads
4.7 years ago caoy4g4 • 0
0
votes
2
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2.2k
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RnBeads set ghost script environment variable
RnBeads ghostscript
5.1 years ago Kathrin.Klee • 0
1
vote
3
replies
1.5k
views
Obtaining annotated results from rnbeads
rnbeads EPIC
updated 5.5 years ago by ▴ 50 • written 5.5 years ago by ★ 1.1k
0
votes
3
replies
1.3k
views
Trouble creating an RnBeads annotation for rn6 rat genome build
RnBeads rn6 RnBeadsAnnotationCreator
updated 5.9 years ago by ▴ 50 • written 5.9 years ago by • 0
0
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1
reply
1.2k
views
RnBeads "The analysis directory does not contain RnBSet objects"
rnbeads
6.6 years ago neuro3030 • 0
0
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1
reply
1.6k
views
RnBeads data preprocessing error
RnBeads
updated 6.8 years ago by • 0 • written 7.2 years ago by • 0
0
votes
0
replies
1.2k
views
differential methylation analysis with RnBeads
rnbeads methylation methylationepic dna methylation
6.8 years ago gabrielrfries • 0
1
vote
1
reply
1.7k
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
7.1 years ago preethibagopi28 ▴ 10
0
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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
7.3 years ago Theo ▴ 10
0
votes
2
replies
2.5k
views
how to do noob+funnorm+bmiq normalization together in minfi or RnBeads?
minfi RnBeads noob preprocessFunnorm BMIQ
updated 7.7 years ago by ★ 6.5k • written 7.7 years ago by ▴ 10
0
votes
0
replies
1.2k
views
'type = genes' for RnBeads::meth() function
rnbeads
7.9 years ago Tom ▴ 10
0
votes
0
replies
1.5k
views
Importing Infinium data files using RnBeads::rnb.execute.import()
RnBeads
8.0 years ago Habil Zare ▴ 200
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0
replies
1.1k
views
RnBeads, enrichment analysis
rnbeads
8.2 years ago gaiusjaugustus • 0
0
votes
0
replies
1.7k
views
Issue with finding .idat files when analysing illumina methylation microarrays using RnBeads
rnbeads methylation illumina epic microarray
8.3 years ago rasii • 0
4
votes
4
replies
3.5k
views
How to remove unwanted probes before normalization in 450k data
minfi 450k champ rnbeads
updated 8.7 years ago by 67k • written 8.8 years ago by ▴ 60
0
votes
2
replies
2.5k
views
error nonzero exit
illuminahumanmethylation450k.db rnbeads
updated 8.9 years ago by • 0 • written 9.3 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
8.9 years ago areyoujokingme • 0
0
votes
0
replies
2.4k
views
RnBeads check.names error:: "formal argument "check.names" matched by multiple actual arguments"
rnbeads software error
9.0 years ago areyoujokingme • 0
2
votes
7
replies
2.3k
views
ggbio, RnBeads and 3.2.2
ggbio rnbeads rversion3.2.2
9.0 years ago areyoujokingme • 0
0
votes
1
reply
1.6k
views
RnBeads - test statistics for rnb.run.differential
RnBeads
updated 9.1 years ago by • 0 • written 9.1 years ago by ▴ 120
0
votes
1
reply
1.4k
views
RnBeads and technical replicates in differential analysis
rnbeads replicates
updated 9.1 years ago by • 0 • written 9.1 years ago by ▴ 40
0
votes
2
replies
2.1k
views
RnBeads - error with 'rnb.run.differential' module
RnBeads illimina 450k methylation
9.1 years ago Brian Smith ▴ 120
1
vote
9
replies
2.4k
views
RnBeads fails with error in version 1.2 with GRanges v1.22.0
RnBeads
updated 9.1 years ago by • 0 • written 9.2 years ago by • 0
1
vote
1
reply
1.9k
views
RnBeads - doesn't produce pdfs
rnbeads illumina450k
updated 9.2 years ago by ▴ 10 • written 9.2 years ago by ▴ 120
0
votes
2
replies
1.9k
views
rnBeads error for the report path
software error rnbeads
updated 9.2 years ago by ★ 8.2k • written 9.2 years ago by • 0
0
votes
1
reply
1.9k
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
9.3 years ago schasse • 0
0
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3
replies
3.3k
views
RnBeads cannot locate libjasper.so.1
rnbeads gs ghostscript shared libraries cluster
9.4 years ago bmreilly • 0
2
votes
4
replies
2.7k
views
Package RnBeads not available for R 3.1.2?
RnBeads packages R 3.1.2
9.4 years ago bmreilly • 0
41 results • Page 1 of 1
Recent ...
Replies
Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by xiaofeiwang198266 • 0
Thanks for your reply!
Votes
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
A: Using RSEM reads for DESeq2
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