Bioconductor Variants

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mutect2 variants pon

written 6 months ago by ramiro.barrantes ▴ 10

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1.7k

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variants waterfall GenVisR

updated 5.2 years ago by zlskidmore ▴ 30 • written 5.2 years ago by Jeni ▴ 10

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1.5k

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whole genome sequencing variants vcf WGS

7.0 years ago Vincent J. Carey, Jr. 6.7k

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1.7k

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variants variantannotation SNPlocs.Hsapiens.dbSNP150.GRCh38 biomaRt

7.9 years ago sandmann.t ▴ 70

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1.6k

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GoogleGenomics genetics variants

9.0 years ago Vincent J. Carey, Jr. 6.7k

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Comment: Bile acid analysis with limpa by ATpoint ★ 5.0k

Wilcox/Mann-Whitney-U cannot work because it is bound to sample size even when all of group X are lower than all of group Y. At 4 vs 3 the …

Comment: chemmineOB install help by Jeremy • 0

I could install ChemmineOB on my MacBook Pro M1 Max using this procedure **1. Install open-babel and eigen using homebrew and create a cus…

Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by Gordon Smyth 53k

The design matrix that I described above is completely general. I imagine that it would be possible to use the same approach to generate fu…

Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by chp265 • 0

Cool, glad to hear I wasn't missing some functionality in DESeq2. I don't know that much about the differences between DESeq2 vs edgeR; my …

Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by Michael Love 43k

Yes, so for one thing, note that Gordon has provided code for doing what you are asking in edgeR, which you can go ahead and use. You aske…

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Comment: limpa analysis advice

Answer: When to use edgeR or limma

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