Bioconductor Ncbi

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Rstudio cDNA ensembldb NCBI

24 months ago R_Page • 0

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3.5k

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RStudio convert ensembldb NCBI

updated 14 months ago by MauriAndres • 0 • written 2.1 years ago by j_denton • 0

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getGFF NCBI biomartr biomaRt

4.3 years ago Matan G. ▴ 60

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MakeOrgPackageFromNCBI NCBI SQL AnnotationForge

updated 5.5 years ago by James W. MacDonald 68k • written 5.5 years ago by chefer • 0

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ontology edger limma ncbi organism package

updated 5.7 years ago by Gordon Smyth 53k • written 5.7 years ago by babak.loghmani ▴ 20

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2.8k

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rsubread ncbi GRCh38 hg38

updated 9.1 years ago by Wei Shi ★ 3.6k • written 9.1 years ago by jan.soderman • 0

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ncbi sra search

9.8 years ago massacomgrao • 0

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ncbi refseq maketxdbfromgff fetchExtendedChromInfoFromUCSC genomeinfodb

updated 9.9 years ago by Hervé Pagès 16k • written 9.9 years ago by gokcen.eraslan ▴ 10

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microarray normalization ncbi

updated 10.6 years ago by James W. MacDonald 68k • written 10.6 years ago by pankajnarula84 ▴ 20

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annotate ncbi url

10.9 years ago reuma • 0

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Comment: Large logFC but somewhat high FDR by JKim • 0

Thank you very much for taking the time to answer the question. I really appreciate your insights and comments.

Comment: upstream git branches of bioc-release by Jeroen ▴ 10

OK I have updated https://bioc-release.r-universe.dev accordingly. Let me know if you find version differences when mirroring binaries.

Comment: Large logFC but somewhat high FDR by Gordon Smyth 53k

I don't know what `tp1` is. The relevant histogram would be: ``` hist(fit2$p.value[,"KO_vs_WT"]) ```

Answer: p.adjust BH Question by Gordon Smyth 53k

Duplicate of https://support.bioconductor.org/p/41077/

Answer: Large logFC but somewhat high FDR by Gordon Smyth 53k

Glad you're getting good use out of the package. The results that you show seem pretty much as one would expect, with nothing surprising. …

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Answer: Large logFC but somewhat high FDR

Comment: upstream git branches of bioc-release

A: p.adjust BH generates duplicate values

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