Bioconductor Peak finding

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medips medip-seq peak finding luckas

updated 8.0 years ago by Lukas Chavez ▴ 570 • written 8.0 years ago by anupriyaverma1408 • 0

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atac-seq diffbind macs2 macs peak finding

updated 8.1 years ago by BioinfGuru ▴ 70 • written 8.7 years ago by igor ▴ 50

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MassSpecWavelet Peak Finding

10.5 years ago s.kazemi.n • 0

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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…

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A: Understanding contrasts limma

Answer: ROAST for small sets

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