Bioconductor Vignette

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SummarizedExperiment vignette

3.1 years ago BioInfoBeginnerrr • 0

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biomaRt vignette

updated 4.1 years ago by ashleymaeconard ▴ 10 • written 5.5 years ago by Russ Hyde ▴ 10

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newpackage vignette installation

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flowcore vignette software error

updated 7.6 years ago by Jiang, Mike ★ 1.3k • written 7.6 years ago by Robert Baer ▴ 70

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biocstyle vignette

updated 7.8 years ago by Andrzej Oleś ▴ 750 • written 7.8 years ago by Aaron Lun ★ 28k

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STRINGdb vignette

updated 8.0 years ago by Gregor Rot ▴ 10 • written 8.0 years ago by mwinerip • 0

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software error cellmix vignette expressionset

8.3 years ago gabor.halasz • 0

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ggbio autoplot color vignette

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github vignette test developers

updated 9.3 years ago by Dan Tenenbaum ★ 8.2k • written 9.3 years ago by anthonycolombo60 • 0

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vignette

updated 9.7 years ago by Dan Tenenbaum ★ 8.2k • written 9.7 years ago by KB ▴ 50

10 results • Page 1 of 1

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Comment: Differing results with DESeq2 by JKim • 0

My two cents. I think it would be more straightforward if you use cellmeans model. Have a look at [A guide to creating design matrices for …

Answer: CluserProfiler message "No gene can be mapped" by James W. MacDonald 68k

Your gene IDs are things like this: `Mpyr-NLJ1B.v3.hap1.scaffold1.g290550`, and the genes in your term2gene table are things like this: `Mp…

Answer: RNA-seq input to GRaNIE by James W. MacDonald 68k

This is [covered in the vignette.][1] [1]: https://bioconductor.org/packages/release/bioc/vignettes/GRaNIE/inst/doc/GRaNIE_packageDe…

Answer: Help using reduceSimMatrix with a custom annotation by sergisayolspuig ▴ 80

Hi there, `reduceSimMatrix()` expects a "GOALL" keytype in the OrgDb object when called with `children=TRUE` (which is the default for thi…

Answer: Analyzing TnSeq data with DESeq2 by cold.wolverine.arku • 0

That's a great use case of DESeq2! Even though it's not specifically tailored for TnSeq data, your approach to normalize and run explorator…

Votes

A: Unbalanced experiment with multiple samples from each patient.

A: Understanding contrasts limma

Answer: ROAST for small sets

A: conceptual question about FDR, FDR adjusted p-value and q-value

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