Bioconductor Vanillaice

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1.3k

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crlmm vanillaice

9.8 years ago Shi, Tao ▴ 720

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1.7k

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SNP6 crlmm vanillaice vanillaice crlmm cnv

updated 9.9 years ago by rscharpf • 0 • written 9.9 years ago by cafelumiere12 ▴ 20

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1.2k

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SNP affy VanillaICE SNP affy VanillaICE

13.1 years ago Rob Scharpf ▴ 250

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1.4k

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Proteomics VanillaICE Proteomics VanillaICE

updated 13.5 years ago by Valerie Obenchain ★ 6.8k • written 13.5 years ago by Francesco Mancuso ▴ 110

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1.2k

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Annotation Cancer VanillaICE crlmm Annotation Cancer VanillaICE crlmm

13.6 years ago Daniel Rico ▴ 110

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1.5k

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SNP Cancer graph oligo SNPchip oligoClasses VanillaICE crlmm SNP Cancer graph oligo

16.0 years ago Min-Han Tan ▴ 40

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1.8k

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Annotation Cancer Breast VanillaICE copynumber Annotation Cancer Breast VanillaICE

16.4 years ago Steven McKinney ▴ 310

7 results • Page 1 of 1

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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…

Comment: RNA Seq using Lrt by Rob • 0

So if I have understood what you have said : If i want to see if Day (time) has an effect / is being tested - then the reduced model should…

Comment: How to convert transcript counts to gene counts in R? by ben • 0

Simply summing transcripts by gene is sufficient for use with DESeq2. [sprunki clicker][1] [1]: https://sprunkiclicker.com/

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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