Bioconductor Mirna-seq

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deseq2 rnaseq mirna-seq differential gene expression

written 7.8 years ago by klalit1803 ▴ 10

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1.5k

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mirna-seq limma

updated 7.3 years ago by Gordon Smyth 53k • written 7.3 years ago by Michael Stone • 0

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mirna-seq

updated 7.5 years ago by Levi Waldron ★ 1.1k • written 7.5 years ago by ndiayediop2 • 0

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mirna-seq

7.6 years ago • updated 7.5 years ago ndiayediop2 • 0

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3.5k

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r survival analysis rtcga tcgabiolinks mirna-seq

7.5 years ago atakanekiz ▴ 30

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deseq2 differentially expression mirna-seq mirna target prediction

updated 7.6 years ago by Michael Love 43k • written 7.6 years ago by Björn • 0

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DESeq2 mirna-seq small RNA-seq

updated 7.9 years ago by Michael Love 43k • written 7.9 years ago by CandiceChuDVM ▴ 40

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deseq2 mirna-seq experimental design differential expression

updated 8.6 years ago by Gavin Kelly ▴ 690 • written 8.6 years ago by francesco.gandolfi ▴ 10

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5.6k

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miRNA mirna-seq

updated 8.8 years ago by Jon Bråte ▴ 270 • written 8.8 years ago by just • 0

9 results • Page 1 of 1

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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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