Bioconductor Dnacopy

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DNAcopy cghMCR DNAcopy cghMCR

15.9 years ago Luz G Alonso ▴ 20

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affy DNAcopy affy DNAcopy

17.3 years ago marco zucchelli ▴ 320

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1.5k

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aCGH SNP Cancer DNAcopy aCGH aCGH SNP Cancer DNAcopy aCGH

updated 17.5 years ago by Henrik Bengtsson ★ 2.4k • written 17.5 years ago by Daniel Brewer ★ 1.9k

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1.7k

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Cancer DNAcopy Cancer DNAcopy

updated 18.1 years ago by Gavin Kelly ▴ 50 • written 18.1 years ago by Daniel Brewer ★ 1.9k

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Normalization CGH probe limma DNAcopy snapCGH Normalization CGH probe limma DNAcopy

18.2 years ago jhs1jjm@leeds.ac.uk ▴ 230

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1.9k

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aCGH Survival CGH annotate genefilter affy DNAcopy aCGH GLAD tilingArray snapCGH aCGH

updated 18.2 years ago by jhs1jjm@leeds.ac.uk ▴ 230 • written 18.2 years ago by caiwei@mdanderson.org ▴ 110

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1.6k

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aCGH Survival Cancer annotate genefilter affy DNAcopy aCGH GLAD tilingArray snapCGH

updated 18.2 years ago by J-C. Marioni ▴ 40 • written 18.2 years ago by caiwei@mdanderson.org ▴ 110

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1.4k

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CGH marray DNAcopy CGH marray DNAcopy

updated 18.3 years ago by Sean Davis 21k • written 18.3 years ago by jhs1jjm@leeds.ac.uk ▴ 230

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1.6k

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Cancer DNAcopy Cancer DNAcopy

updated 18.3 years ago by Martin Morgan 25k • written 18.3 years ago by Daniel Brewer ★ 1.9k

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998

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SNP affy DNAcopy GLAD SNP affy DNAcopy GLAD

18.4 years ago Wittner, Ben ▴ 290

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1.7k

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Cancer DNAcopy Cancer DNAcopy

updated 18.4 years ago by Seth Falcon ★ 7.4k • written 18.4 years ago by Daniel Brewer ★ 1.9k

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1.2k

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Cancer convert DNAcopy snapCGH cghMCR Cancer convert DNAcopy snapCGH cghMCR

18.4 years ago Daniel Brewer ★ 1.9k

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1.2k

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Cancer DNAcopy cghMCR Cancer DNAcopy cghMCR

updated 18.9 years ago by John Zhang ★ 2.9k • written 18.9 years ago by Ramon Diaz ★ 1.1k

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1.3k

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aCGH Clustering CGH geneplotter DNAcopy aCGH GLAD aCGH Clustering CGH geneplotter aCGH

20.7 years ago Yi, Andrew ▴ 20

64 results • Page 2 of 2

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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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Popular Question to James W. MacDonald 68k