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CHARM qcReport Question
charm charm
11.7 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
12.1 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 12.3 years ago by ▴ 50 • written 12.3 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
12.3 years ago Nitesh Turaga ▴ 50
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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 12.3 years ago by ★ 4.3k • written 12.3 years ago by ▴ 50
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ShortRead 3' trimming negative length vectors are not allowed
charm charm
updated 12.6 years ago by 25k • written 12.6 years ago by ▴ 300
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1.5k
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Charm Error - methp
charm charm
12.6 years ago zeynep özkeserli ▴ 160
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2.0k
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Conversion of minfi format MethylSet to methyAnalysis format MethyGenoSet
Cancer charm minfi methyAnalysis Cancer charm minfi methyAnalysis
12.8 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
12.8 years ago Guest User ★ 13k
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RCytoscape on Windows
Network charm RCytoscape Network charm RCytoscape
13.0 years ago Paul Shannon ▴ 750
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[package announcement] bumphunter
charm minfi bsseq bumphunter charm minfi bsseq bumphunter
13.0 years ago Kasper Daniel Hansen ★ 6.5k
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CHARM - The following columns in sampleKey...
convert charm convert charm
updated 13.1 years ago by ▴ 120 • written 13.1 years ago by ★ 13k
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13
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3.1k
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Question about interpretation of CHARM results
charm charm
updated 13.3 years ago by ▴ 120 • written 13.3 years ago by ▴ 160
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980
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Scripts for CHARM data analysis
charm charm
updated 13.4 years ago by ★ 4.2k • written 13.4 years ago by ▴ 10
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1.3k
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How can I identify the closest transcript from a chromosome coordinate?
Microarray Genetics probe charm Microarray Genetics probe charm
13.4 years ago Yoo, Seungyeul ▴ 110
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4
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2.2k
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How can I obtain gene name from chromosome location?
Lung charm genomes Lung charm genomes
updated 13.4 years ago by ★ 13k • written 13.4 years ago by ▴ 110
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error in dmrFinder of charm package when there is one sample per group
charm charm
13.5 years ago P. Murakami ▴ 30
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996
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error in dmrFinder of charm package when there is one sample per group
charm charm
13.5 years ago Tarca, Adi ▴ 570
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1.1k
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charm package using MEDIP protocol
charm charm
13.5 years ago Tarca, Adi ▴ 570
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1.6k
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Nimblegen promoter medip array platform design file problem
BiocViews Annotation Organism biocViews pdInfoBuilder charm BiocViews BiocViews Annotation
13.6 years ago zeynep özkeserli ▴ 160
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1.6k
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Nimblegen promoter medip array platform design file problem
BiocViews Annotation Organism biocViews pdInfoBuilder charm BiocViews BiocViews Annotation
13.6 years ago zeynep özkeserli ▴ 160
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0
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807
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GOHyperGResult in a data.frame, possible NAMESPACE problem?
charm charm
15.9 years ago Robert Castelo ★ 3.4k
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1.3k
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biomaRt proxy issues
GO biomaRt charm GO biomaRt charm
16.7 years ago Steve Pederson ▴ 60
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1.1k
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Problems reading multiple MAQ map files with ShortRead ReadAligned
ShortRead charm ShortRead charm
16.7 years ago David Rossell ▴ 100
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1
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1.2k
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Problems reading multiple MAQ map files with ShortRead ReadAligned
Cancer PROcess ShortRead charm Cancer PROcess ShortRead charm
16.7 years ago Martin Morgan 25k
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Assistant/Associate Professor Department of Biostatistics
Pathways Bayesian Cancer charm Pathways Bayesian Cancer charm
16.8 years ago Kellie J. Archer, Ph.D. ▴ 120
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2
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5.8k
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biomaRt proxy issues
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updated 16.8 years ago by ▴ 600 • written 16.8 years ago by ▴ 60
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5
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1.7k
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Problem with Rgraphviz on OSX with libgvc
graph Rgraphviz charm graph Rgraphviz charm
updated 18.9 years ago by ★ 7.4k • written 18.9 years ago by ▴ 80
28 results • Page 1 of 1
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Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Answer: PTM analysis in LIMPA by Gordon Smyth 53k
For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…
Answer: problem reading bam files into nucleR by James W. MacDonald 68k
The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…
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C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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