Bioconductor Getseq

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circulargenome ORFik getSeq

4.8 years ago • updated 4.7 years ago hauken_heyken ▴ 80

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1.1k

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signeR getseq

updated 6.6 years ago by renan.valieris ▴ 10 • written 6.6 years ago by TRASA • 0

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2.1k

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BSgenome getSeq

updated 8.4 years ago by Martin Morgan 25k • written 8.4 years ago by rubi ▴ 110

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1.8k

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R bsgenome getseq

updated 8.9 years ago by James W. MacDonald 68k • written 8.9 years ago by pm16057 • 0

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6.3k

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dnastringset getseq

updated 9.4 years ago by Hervé Pagès 16k • written 9.4 years ago by TimothéeFlutre ▴ 80

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1.9k

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rtracklayer NA BED getseq

10.1 years ago Dimitris Polychronopoulos ▴ 80

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2.6k

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bsgenome getseq

updated 10.1 years ago by Martin Morgan 25k • written 10.1 years ago by dborgesrmit • 0

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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…

Votes

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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