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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
12.2 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 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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3.2k
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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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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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983
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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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2.3k
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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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1.0k
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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
13.7 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
13.7 years ago zeynep özkeserli ▴ 160
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0
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809
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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
16.8 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
16.8 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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5.8k
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biomaRt proxy issues
biomaRt charm biomaRt charm
updated 16.9 years ago by ▴ 600 • written 16.9 years ago by ▴ 60
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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
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Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
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…
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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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