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CHARM qcReport Question
charm charm
10.8 years ago zeynep özkeserli ▴ 160
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working with genome-wide phastCons scores
BSgenome convert BSgenome rtracklayer IRanges charm BSgenome convert BSgenome rtracklayer
11.2 years ago Robert Castelo ★ 3.4k
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Reg: makePdInfoPackage Error in sqliteExecStatement(con, statement, bind.data) : bind.data must have non-zero dimensions
Annotation PROcess pdInfoBuilder charm Annotation PROcess pdInfoBuilder charm
updated 11.4 years ago by ▴ 50 • written 11.4 years ago by ★ 4.3k
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Reg: makePdInfoPackage Error in sqliteExecStatement(con, statement, bind.data) : bind.data must have non-zero dimensions
Annotation PROcess pdInfoBuilder charm Annotation PROcess pdInfoBuilder charm
11.4 years ago Nitesh Turaga ▴ 50
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1.5k
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Reg: makePdInfoPackage Error in sqliteExecStatement(con, statement, bind.data) : bind.data must have non-zero dimensions
Annotation PROcess pdInfoBuilder charm Annotation PROcess pdInfoBuilder charm
updated 11.4 years ago by ★ 4.3k • written 11.4 years ago by ▴ 50
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5
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1.9k
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ShortRead 3' trimming negative length vectors are not allowed
charm charm
updated 11.7 years ago by 25k • written 11.7 years ago by ▴ 300
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1.4k
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Charm Error - methp
charm charm
11.7 years ago zeynep özkeserli ▴ 160
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1.9k
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Conversion of minfi format MethylSet to methyAnalysis format MethyGenoSet
Cancer charm minfi methyAnalysis Cancer charm minfi methyAnalysis
11.9 years ago Ed Schwalbe ▴ 20
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CHARM: Affymetrix 1.0R tiling arrays import
BSgenome affy BSgenome oligo charm BSgenome affy BSgenome oligo charm
11.9 years ago Guest User ★ 13k
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2.0k
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RCytoscape on Windows
Network charm RCytoscape Network charm RCytoscape
12.1 years ago Paul Shannon ▴ 750
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1.2k
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[package announcement] bumphunter
charm minfi bsseq bumphunter charm minfi bsseq bumphunter
12.1 years ago Kasper Daniel Hansen ★ 6.5k
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13
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2.6k
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CHARM - The following columns in sampleKey...
convert charm convert charm
updated 12.2 years ago by ▴ 120 • written 12.2 years ago by ★ 13k
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13
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2.6k
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Question about interpretation of CHARM results
charm charm
updated 12.4 years ago by ▴ 120 • written 12.4 years ago by ▴ 160
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1
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845
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Scripts for CHARM data analysis
charm charm
updated 12.4 years ago by ★ 4.2k • written 12.4 years ago by ▴ 10
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1.1k
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How can I identify the closest transcript from a chromosome coordinate?
Microarray Genetics probe charm Microarray Genetics probe charm
12.5 years ago Yoo, Seungyeul ▴ 110
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4
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1.9k
views
How can I obtain gene name from chromosome location?
Lung charm genomes Lung charm genomes
updated 12.5 years ago by ★ 13k • written 12.5 years ago by ▴ 110
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832
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error in dmrFinder of charm package when there is one sample per group
charm charm
12.6 years ago P. Murakami ▴ 30
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893
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error in dmrFinder of charm package when there is one sample per group
charm charm
12.6 years ago Tarca, Adi ▴ 570
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969
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charm package using MEDIP protocol
charm charm
12.6 years ago Tarca, Adi ▴ 570
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0
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1.4k
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Nimblegen promoter medip array platform design file problem
BiocViews Annotation Organism biocViews pdInfoBuilder charm BiocViews BiocViews Annotation
12.7 years ago zeynep özkeserli ▴ 160
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1.5k
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Nimblegen promoter medip array platform design file problem
BiocViews Annotation Organism biocViews pdInfoBuilder charm BiocViews BiocViews Annotation
12.7 years ago zeynep özkeserli ▴ 160
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0
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737
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GOHyperGResult in a data.frame, possible NAMESPACE problem?
charm charm
15.0 years ago Robert Castelo ★ 3.4k
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1.2k
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biomaRt proxy issues
GO biomaRt charm GO biomaRt charm
15.8 years ago Steve Pederson ▴ 60
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1.0k
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Problems reading multiple MAQ map files with ShortRead ReadAligned
ShortRead charm ShortRead charm
15.8 years ago David Rossell ▴ 100
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1
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1.0k
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Problems reading multiple MAQ map files with ShortRead ReadAligned
Cancer PROcess ShortRead charm Cancer PROcess ShortRead charm
15.8 years ago Martin Morgan 25k
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Assistant/Associate Professor Department of Biostatistics
Pathways Bayesian Cancer charm Pathways Bayesian Cancer charm
15.9 years ago Kellie J. Archer, Ph.D. ▴ 120
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2
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5.6k
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biomaRt proxy issues
biomaRt charm biomaRt charm
updated 15.9 years ago by ▴ 600 • written 15.9 years ago by ▴ 60
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5
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1.5k
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Problem with Rgraphviz on OSX with libgvc
graph Rgraphviz charm graph Rgraphviz charm
updated 18.0 years ago by ★ 7.4k • written 18.0 years ago by ▴ 80
28 results • Page 1 of 1
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Answer: Why did PCA plots look exactly the same after adjusting for batch covariate in D by James W. MacDonald 67k
All you have done is set up a `DESeqDataSet` object and then run `vst` on it. That won't affect the PCA plot at all - you are simply tellin…
Comment: Newbie Question - adding metadata to an analysis by Bryan H • 0
Makes sense now, thanks for the help!
Comment: Deseq2, enrichGO and ensembl ID by Quang • 0
Hi James -- I hope to piggy back on this question of how to deal with the ensemble ID with version ID suffix. In contrast to https://suppor…
Comment: Newbie Question - adding metadata to an analysis by James W. MacDonald 67k
You don't need to generate an `ExpressionSet`, as you already have a `GeneFeatureSet`, which extends `eSet` and is a better fit for what yo…
Comment: Newbie Question - adding metadata to an analysis by Bryan H • 0
Thanks for the documentation. I have most of it working, except for the most critical step - incorporating the new metadata with the datase…
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