Bioconductor Gene symbol

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23k

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tcga cnv gene symbol coordinate

updated 18 months ago by James W. MacDonald 65k • written 9.0 years ago by NS ▴ 60

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2.5k

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deseq2 dataframe ensembl gene id gene symbol entrezid

4.4 years ago jason.williams • 0

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13k

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biomart gene symbol

updated 8.8 years ago by Diego Diez ▴ 760 • written 9.0 years ago by chang02_23 ▴ 30

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1.6k

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dmrcate gene symbol coordinate

5.8 years ago 574233829 • 0

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1.5k

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transcript_id gene symbol

updated 8.7 years ago by James W. MacDonald 65k • written 8.7 years ago by Jo ▴ 30

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2.9k

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biomart homo.sapiens genome regions gene symbol

updated 9.0 years ago by Hervé Pagès 16k • written 9.0 years ago by NS ▴ 60

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2.6k

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probe filter subset gene symbol affy

9.2 years ago alakatos ▴ 130

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1.9k

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deseq2 gene symbol ensembl

updated 5.4 years ago by Michael Love 41k • written 5.4 years ago by thkapell ▴ 10

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3.5k

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Pathview KEGG annotation gene symbol visualization

updated 8.9 years ago by Luo Weijun ★ 1.6k • written 8.9 years ago by alakatos ▴ 130

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935

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GRanges gene symbol IdeoViz

5.5 years ago Arman Shahrisa ▴ 20

10 results • Page 1 of 1

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Answer: Once again a "Model matrix not full rank" by swbarnes2 ★ 1.3k

Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…

Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k

I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …

Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k

It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…

Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k

This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…

Comment: CombineArrays for EPIC and EPIC V2 by Kim • 0

Thank you Tim, this is a great help in getting me started!

Votes

Answer: limma Intercept vs No-intercept models completely changing DMR results?

Answer: CombineArrays for EPIC and EPIC V2

Answer: Too many significant genes when integrating gtex and tcga

Comment: Too many significant genes when integrating gtex and tcga

A: Print Differentially Expressed Exons From Dexseq Results

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