Bioconductor Maketxdbfrombiomart

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biomart txdb makeTxDbFromBiomart GenomicFeatures

updated 5.3 years ago by James W. MacDonald 68k • written 5.3 years ago by ksomi47 • 0

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2.3k

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R maketxdbfrombiomart maketxdbfromgranges rstudio ensembl

updated 2.1 years ago by Shreyash ▴ 10 • written 6.4 years ago by rtwest • 0

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software error txdb maketxdbfrombiomart

6.6 years ago katie_emelianova • 0

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2.5k

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genomicfeatures txdb maketxdbfromucsc maketxdbfrombiomart rtracklayer

updated 7.4 years ago by Michael Lawrence ★ 11k • written 7.4 years ago by james.dalgleish ▴ 30

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crash SGSeq TxDb makeTxDbFromBiomart TxFeatures

updated 7.6 years ago by Leonard Goldstein ▴ 260 • written 7.6 years ago by oolongoni ▴ 40

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maketxdbfrombiomart

7.7 years ago floriandeckert ▴ 30

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2.1k

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biomart genomicfeatures maketxdbfrombiomart ensembldb ensDbFromGtf

updated 7.8 years ago by Johannes Rainer ★ 2.1k • written 7.8 years ago by Marie • 0

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biomart maketxdbfrombiomart genomicfeatures

updated 8.3 years ago by James W. MacDonald 68k • written 8.3 years ago by kaur.alasoo ▴ 30

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3.8k

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genomicfeatures biomart maketxdbfrombiomart

updated 8.3 years ago by Thomas Maurel ▴ 800 • written 8.3 years ago by Didi ▴ 10

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biomart maketxdbfrombiomart genomicfeatures

8.8 years ago • updated 8.7 years ago Ryan C. Thompson ★ 7.9k

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biomart maketxdbfrombiomart granges

updated 9.2 years ago by Vincent J. Carey, Jr. 6.7k • written 9.2 years ago by vinod.acear ▴ 50

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software error maketxdbfrombiomart

updated 9.4 years ago by Maciej Jończyk • 0 • written 9.5 years ago by luigi.cerulo ▴ 40

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3.2k

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makeTxDbFromBiomart genomicfeatures txdb biomart

updated 9.5 years ago by James W. MacDonald 68k • written 9.5 years ago by vinod.acear ▴ 50

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Answer: DESeq2 Apeglm Coefficient Reordering / Log2FoldChange Comparison Change by James W. MacDonald 68k

Yes, you can simply flip the sign of the logFC to reverse the direction of the comparison.

Comment: Heatmap of a transformed deseq object with pheatmap by James W. MacDonald 68k

The argument for annotation_col is meant to be a `data.frame`, not a vector. The hint in the error is that it has the wrong number of dimen…

Comment: Heatmap of a transformed deseq object with pheatmap by caroline.zanchi • 0

I used this argument in the second paragraph of code forthe heatmap, this is wehre I got the message Error in `[.default`(annotation_col, c…

Answer: Heatmap of a transformed deseq object with pheatmap by James W. MacDonald 68k

Ah, yes. The non-ASCII character error. My favorite! Please note that `pheatmap` is not a Bioconductor package, so you should be asking …

Comment: Heatmap of a transformed deseq object with pheatmap by caroline.zanchi • 0

It is in ! It just took longer than planned :) ... aaaand now that I added the heatmap in I realize lits of genes really do not look like t…

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Comment: Heatmap of a transformed deseq object with pheatmap

DESeq2: Question about the alpha in summary() and results()

Comment: How to load scRNA-seq data from GEO

limma correction for tumor purity

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